| .. |
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abacas
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
abricate
|
add module for abricate (#1280)
|
2 years ago |
|
adapterremoval
|
Refactor adapterremoval (#1491)
|
2 years ago |
|
adapterremovalfixprefix
|
Set process label to `process_single` for modules with no `task.cpus` usage (#2076)
|
2 years ago |
|
agrvate
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
allelecounter
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
ampir
|
Add file name collision check + TSV output
|
2 years ago |
|
amplify/predict
|
add module AMPlify (#1498)
|
2 years ago |
|
amps
|
Untar unzip meta (#1408)
|
2 years ago |
|
amrfinderplus
|
Amrfinderplus: add db-version to versions.yml (#1899)
|
2 years ago |
|
angsd/docounts
|
Add: ANGSD_DOCOUNTS (#2044)
|
2 years ago |
|
antismash
|
Apply suggestions from code review
|
2 years ago |
|
ariba
|
add module for ariba (#1731)
|
2 years ago |
|
arriba
|
Update Arriba to 2.3.0 (#1827)
|
2 years ago |
|
artic
|
Bump tool versions for modules required in viralrecon (#1859)
|
2 years ago |
|
ascat
|
Added output files to ASCAT (#1820)
|
2 years ago |
|
assemblyscan
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
ataqv
|
Ataqv mkarv (#1857)
|
2 years ago |
|
atlas
|
New Module: atlas/recal (#1915)
|
2 years ago |
|
bakta
|
update bakta to latest version (v1.4.0) (#1428)
|
2 years ago |
|
bamaligncleaner
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
bamcmp
|
bamcmp (#1244)
|
2 years ago |
|
bamtools
|
Adding module bamtools stats (#2104)
|
2 years ago |
|
bamutil/trimbam
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
bandage/image
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
bases2fastq
|
Add bases2fastq (#2054)
|
2 years ago |
|
bbmap
|
New module - BBMap clumpify (#1978)
|
2 years ago |
|
bcftools
|
Fix bcftools/stats module (#1953)
|
2 years ago |
|
bcl2fastq
|
Module/bcl2fastq (#1883)
|
2 years ago |
|
bclconvert
|
Bump bcl-convert version (#2077)
|
2 years ago |
|
bedtools
|
added bedtools split
|
2 years ago |
|
biobambam
|
bamsormadup: add extra test case, fix single file input (#1905)
|
2 years ago |
|
biscuit
|
Add core Biscuit tools (#1354)
|
2 years ago |
|
bismark
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
blast
|
Add blast/tblastn module (#2092)
|
2 years ago |
|
bowtie
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
bowtie2
|
add PE sorted test
|
2 years ago |
|
bracken
|
Add bracken/combinebrackenoutputs (#2022)
|
2 years ago |
|
busco
|
Update busco to v5.4.3 and tar small files (#1970)
|
2 years ago |
|
bwa
|
Samtools version update (#1507)
|
2 years ago |
|
bwamem2
|
Added support for meta in bwamem2/index (#1921)
|
2 years ago |
|
bwameth
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
cat
|
bugfix: when there is a single input file, stageAs("?/*) returns the path directly, not in a list (#2114)
|
2 years ago |
|
cellranger
|
Remove empty file md5sum
|
2 years ago |
|
centrifuge
|
Update module: Use report insted of results for centrifuge/kreport (#1929)
|
2 years ago |
|
checkm/lineagewf
|
Update checkM version and add support for pre-defined database (#2125)
|
2 years ago |
|
chromap
|
Samtools version update (#1507)
|
2 years ago |
|
clonalframeml
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
cmseq/polymut
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
cnvkit
|
added fasta_fai as input + changed if statements
|
2 years ago |
|
cnvpytor
|
combine multiple pytor
|
2 years ago |
|
controlfreec
|
Fix Controlfreec: Add stub runs to test single sample input & make conda work with R scripts (#1504)
|
2 years ago |
|
cooler
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
csvtk
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
custom
|
Updated dumpsoftwareversions.py to match the pipeline template (#2045)
|
2 years ago |
|
cutadapt
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
damageprofiler
|
Set process label to `process_single` for modules with no `task.cpus` usage (#2076)
|
2 years ago |
|
dastool
|
Update DASTool to 1.1.4 (#1471)
|
2 years ago |
|
dedup
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
deeparg
|
Deeparg singularity container fix 2 (#1406)
|
2 years ago |
|
deepbgc
|
new module: deepbgc/pipeline (#2014)
|
2 years ago |
|
deeptools
|
changed container + add cram2bam conversion
|
2 years ago |
|
deepvariant
|
Update version & add intervals usage (#1214)
|
2 years ago |
|
delly/call
|
updated the version of delly (#2105)
|
2 years ago |
|
diamond
|
Update DIAMOND module to output log file (#1879)
|
2 years ago |
|
dragmap
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
dragonflye
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
dshbio
|
Update dsh-bio to version 2.0.7, add support for compressed GFA 1.0 format (#1207)
|
2 years ago |
|
ectyper
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
eido
|
Update eido/validate module (#2071)
|
2 years ago |
|
elprep
|
Merge remote-tracking branch 'origin' into motus_profile
|
2 years ago |
|
emmtyper
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
endorspy
|
New Module: endorspy (#1916)
|
2 years ago |
|
ensemblvep
|
add stub and the option to compress output for vep (#2111)
|
2 years ago |
|
entrezdirect
|
Set process label to `process_single` for modules with no `task.cpus` usage (#2076)
|
2 years ago |
|
epang
|
epang: Output gzipped jplace (#2037)
|
2 years ago |
|
expansionhunter
|
add stub to modules used in raredisease pipeline (#1206)
|
2 years ago |
|
faqcs
|
Faqcs patch to add tests for --debug output (#1368)
|
2 years ago |
|
fargene
|
Add HAMRONIZATION/FARGENE and updates all HARMONIZATION tools to 1.1.1 (#2107)
|
2 years ago |
|
fastani
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
fastawindows
|
New module: fasta_windows (#1956)
|
2 years ago |
|
fastk
|
Add FastK/Merge (#1828)
|
2 years ago |
|
fastp
|
Fix duplicated input in single-end fastp command (#2034)
|
2 years ago |
|
fastqc
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
fastqscan
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
fasttree
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
ffq
|
Add ffq module (#1842)
|
2 years ago |
|
fgbio
|
Fgbio/fastqtobam (#1980)
|
2 years ago |
|
filtlong
|
Update filtlong module to output log file (#1873)
|
2 years ago |
|
flash
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
flye
|
Add new module: Flye (#1164)
|
2 years ago |
|
fq/lint
|
Added fq/lint module (#1968)
|
2 years ago |
|
freebayes
|
Update intervals (#1278)
|
2 years ago |
|
gamma/gamma
|
fixed test.yml
|
2 years ago |
|
gappa
|
Adding gappa/examineheattree (#2084)
|
2 years ago |
|
gatk
|
Add GATK indelrealigner tests
|
2 years ago |
|
gatk4
|
Adding stubs to PicardLiftovervcf, GATK4_mergevcfs and filterMutectCalls (#1621)
|
2 years ago |
|
gecco/run
|
Add gecco/run module (#1790)
|
2 years ago |
|
genescopefk
|
Add GeneScopeFK (#1781)
|
2 years ago |
|
genmap
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
genmod
|
update options (#1959)
|
2 years ago |
|
genomescope2
|
Update tests/modules/genomescope2/test.yml
|
2 years ago |
|
genotyphi/parse
|
add module for mykrobe predict and genotyphi parse (#1818)
|
2 years ago |
|
genrich
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
gfaffix
|
Adding new module gfaffix (#1149)
|
2 years ago |
|
gffread
|
Replace remaining task.ext.suffix with task.ext.prefix (#1117)
|
2 years ago |
|
glimpse/chunk
|
Creation of Glimpse Chunk (#1985)
|
2 years ago |
|
glnexus
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
goat/taxonsearch
|
2012 bug related to species input in goattaxonsearch module (#2099)
|
2 years ago |
|
graphmap2
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
gstama
|
New Module: `gstama/polyacleanup` (#1468)
|
2 years ago |
|
gtdbtk/classifywf
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
gubbins
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
gunc
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
gunzip
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
gvcftools/extractvariants
|
added gvcftools/extractvariants (#1924)
|
2 years ago |
|
hamronization
|
Add HAMRONIZATION/FARGENE and updates all HARMONIZATION tools to 1.1.1 (#2107)
|
2 years ago |
|
haplocheck
|
fix: string interpolation and test input access
|
2 years ago |
|
haplogrep2/classify
|
Add haplogrep2 (#2030)
|
2 years ago |
|
happy
|
Merge remote-tracking branch 'origin' into motus_profile
|
2 years ago |
|
hicap
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
hifiasm
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
hisat2
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
hmmcopy
|
hmmcopy/mapCounter (#1175)
|
2 years ago |
|
hmmer
|
eslreformat: descriptive suffix (#2081)
|
2 years ago |
|
hmtnote
|
Update main.nf
|
2 years ago |
|
homer
|
Fix homer/maketagdirectory output collision (#1456)
|
2 years ago |
|
hpsuissero
|
add module for hpsuisero (#1331)
|
2 years ago |
|
ichorcna
|
Prettier (#1405)
|
2 years ago |
|
idr
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
imputeme/vcftoprs
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
instrain/profile
|
Instrain profile (#1822)
|
2 years ago |
|
iqtree
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
ismapper
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
isoseq3
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
ivar
|
Patch fix artic/minion and ivar/variants modules (#1326)
|
2 years ago |
|
jupyternotebook
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
kaiju
|
Add KAIJU2KRONA module (#1800)
|
2 years ago |
|
kallisto/index
|
add stub for kallisto/index (#1944)
|
2 years ago |
|
kallistobustools
|
Improved kbtools/count (#1884)
|
2 years ago |
|
kat/hist
|
Update tests/modules/kat/hist/test.yml
|
2 years ago |
|
khmer
|
Add khmer unique-kmers.py module (#1838)
|
2 years ago |
|
kleborate
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
kraken2/kraken2
|
update to kraken2: breaking change - output channels renamed (#1525)
|
2 years ago |
|
krakentools
|
Update KRAKENTOOLS/COMBINEKREPORTS (#2043)
|
2 years ago |
|
krona
|
Fix Krona ktimporttaxonomy to allow multiple input files and simplifies database input (#1841)
|
2 years ago |
|
last
|
Untar unzip meta (#1408)
|
2 years ago |
|
leehom
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
legsta
|
add module for legsta (#1319)
|
2 years ago |
|
lima
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
lissero
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
lofreq
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
macrel/contigs
|
Add new module macrel/contigs (#1109)
|
2 years ago |
|
macs2/callpeak
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
mafft
|
Add MAFFT module (#1351)
|
2 years ago |
|
malt
|
Update MALT to older version due to major bug in most recent version (#1796)
|
2 years ago |
|
maltextract
|
Untar unzip meta (#1408)
|
2 years ago |
|
manta
|
Update tests/modules/manta/convertinversion/main.nf
|
2 years ago |
|
mapdamage2
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
mash
|
Patch mash screen
|
2 years ago |
|
mashtree
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
maxbin2
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
maxquant/lfq
|
corrected typos
|
2 years ago |
|
mcroni
|
add module for mcroni (#1750)
|
2 years ago |
|
md5sum
|
new module: md5sum
|
2 years ago |
|
medaka
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
megahit
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
megan
|
Add MEGAN/DAA2INFO (#1848)
|
2 years ago |
|
meningotype
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
merqury
|
Add Merqury (#1647)
|
2 years ago |
|
merquryfk
|
Add MerquryFK KatGC (#1798)
|
2 years ago |
|
meryl
|
Merge branch 'master' into meryl_unionsum
|
2 years ago |
|
metabat2
|
Update metabat2 output channels and compression (#1111)
|
2 years ago |
|
metaphlan3
|
Update METAPHLAN3_METAPHLAN3 to correct module name (#2056)
|
2 years ago |
|
methyldackel
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
minia
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
miniasm
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2 years ago |
|
minimap2
|
Added the meta map to minimap2/index (#1934)
|
2 years ago |
|
mlst
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
mobsuite/recon
|
add mobsuite_recon module (#1270)
|
2 years ago |
|
mosdepth
|
Update main.nf
|
2 years ago |
|
motus
|
Update mOTUs to remove now unused channel (#2075)
|
2 years ago |
|
msisensor
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
msisensor2
|
1976 msisensor2 (#1977)
|
2 years ago |
|
msisensorpro
|
Add msisensorpro (#1267)
|
2 years ago |
|
mtnucratio
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
multiqc
|
Update MULTIQC for an additional custom config (#2063)
|
2 years ago |
|
multivcfanalyzer
|
Add MultiVCFAnalyzer (#1845)
|
2 years ago |
|
mummer
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
muscle
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
mykrobe/predict
|
add module for mykrobe predict and genotyphi parse (#1818)
|
2 years ago |
|
nanolyse
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2 years ago |
|
nanoplot
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
ncbigenomedownload
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
nextclade
|
Bump tool versions for modules required in viralrecon (#1859)
|
2 years ago |
|
nextgenmap
|
New Module: NextGenMap (#1938)
|
2 years ago |
|
ngmaster
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
ngscheckmate/ncm
|
New module: NGSCheckMate (#1290)
|
2 years ago |
|
nucmer
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
optitype
|
Add BAM indexes as input for optitype module. (#1388)
|
2 years ago |
|
pairix
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
pairtools
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2 years ago |
|
panaroo/run
|
add module for panaroo, fix pirate tests (#1444)
|
2 years ago |
|
pangolin
|
Bump tool versions for modules required in viralrecon (#1859)
|
2 years ago |
|
paraclu
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
pasty
|
add module for pasty (#2003)
|
2 years ago |
|
pbbam/pbmerge
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2 years ago |
|
pbccs
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
pbptyper
|
add module for pbptyper (#2005)
|
2 years ago |
|
pear
|
Add new module: Pear (#1779)
|
2 years ago |
|
peddy
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
phantompeakqualtools
|
Add task.ext.args to phantompeakqualtools and finish the module (#1474)
|
2 years ago |
|
phyloflash
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
picard
|
Adding stubs to PicardLiftovervcf, GATK4_mergevcfs and filterMutectCalls (#1621)
|
2 years ago |
|
pints/caller
|
feat(pints): Add initial caller module (#1983)
|
2 years ago |
|
pirate
|
add module for panaroo, fix pirate tests (#1444)
|
2 years ago |
|
plasmidfinder
|
add module for plasmidfinder (#1773)
|
2 years ago |
|
plasmidid
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
plink
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2 years ago |
|
plink2
|
implement plink2/score module (#1259)
|
2 years ago |
|
pmdtools/filter
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
porechop
|
Update PORECHOP module to output log file (#1870)
|
2 years ago |
|
preseq
|
Split preseq lcextrap and ccurve (#1440)
|
2 years ago |
|
prinseqplusplus
|
Add PRINSEQPLUSPLUS (#1481)
|
2 years ago |
|
prodigal
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
prokka
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
pycoqc
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
pydamage
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
qcat
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
qualimap
|
add qualimap with cram files + remove val from qualimap/bam, instead use empty list as everywhere else (#1320)
|
2 years ago |
|
quast
|
Bump tool versions for modules required in viralrecon (#1859)
|
2 years ago |
|
racon
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
rapidnj
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
rasusa
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2 years ago |
|
raven
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Raven assembler (#1087)
|
2 years ago |
|
raxmlng
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
rgi/main
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Update RGI: add database version reporting to module (#1824)
|
2 years ago |
|
rhocall/annotate
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update test
|
2 years ago |
|
rmarkdownnotebook
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
roary
|
Update test.yml (#1419)
|
2 years ago |
|
rsem
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Bump STAR version to 2.7.10a for RSEM modules (#1573)
|
2 years ago |
|
rseqc
|
Provide BAI when running rseqc/tin (#1177)
|
2 years ago |
|
rtgtools
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new module rtgtools/pedfilter (#1777)
|
2 years ago |
|
salmon
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
samblaster
|
Samtools version update (#1507)
|
2 years ago |
|
samtools
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samtools fasta module (#2128)
|
2 years ago |
|
scoary
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
scramble
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New module: scramble (#2015)
|
2 years ago |
|
seacr/callpeak
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Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
seqkit
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feat: add module for seqkit stats (#1466)
|
2 years ago |
|
seqsero2
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Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
seqtk
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Set process label to `process_single` for modules with no `task.cpus` usage (#2076)
|
2 years ago |
|
sequenzautils
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Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
seqwish/induce
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Bump `seqwish/induce` to v0.7.6 (#2083)
|
2 years ago |
|
seroba/run
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add module for seroba (#1816)
|
2 years ago |
|
sexdeterrmine
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Corrected test-datasets input
|
2 years ago |
|
shasum
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added sha256sum
|
2 years ago |
|
shigatyper
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Merge remote-tracking branch 'origin' into motus_profile
|
2 years ago |
|
shovill
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
sistr
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add module for sistr (#1323)
|
2 years ago |
|
slimfastq
|
Merge remote-tracking branch 'origin' into motus_profile
|
2 years ago |
|
snapaligner
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snapaligner: improve index detection (#1836)
|
2 years ago |
|
snippy
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add snippy/core module (#1855)
|
2 years ago |
|
snpdists
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Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
snpeff
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DRAFT: Extend output from snpeff (#1895)
|
2 years ago |
|
snpsift/split
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Added new module snpsift/split (#1031)
|
2 years ago |
|
snpsites
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Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
somalier
|
Somalier relate (#2001)
|
2 years ago |
|
sourmash/sketch
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feat: add sourmash sketch (#1287)
|
2 years ago |
|
spades
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Bump tool versions for modules required in viralrecon (#1859)
|
2 years ago |
|
spatyper
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
sratools
|
refactor: move files to custom section
|
2 years ago |
|
srst2/srst2
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Merge remote-tracking branch 'origin' into motus_profile
|
2 years ago |
|
ssuissero
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add module for ssuisero (#1329)
|
2 years ago |
|
stadeniolib/scramble
|
new tool: staden_io_lib (#1499)
|
2 years ago |
|
staphopiasccmec
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
star
|
Add stub star align genomegenerate (#1948)
|
2 years ago |
|
stranger
|
add stubs for stranger (#1543)
|
2 years ago |
|
strelka
|
Update intervals (#1278)
|
2 years ago |
|
stringtie
|
add stub for stringtie (#1949)
|
2 years ago |
|
subread/featurecounts
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
svdb
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update stub for svdb/merge (#2066)
|
2 years ago |
|
svtk/standardize
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new module: svtk/standardize (#2031)
|
2 years ago |
|
tabix
|
Added an output channel for the gzi index (#2036)
|
2 years ago |
|
tailfindr
|
Tailfindr (#1904)
|
2 years ago |
|
tbprofiler/profile
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2 years ago |
|
tiddit
|
TIDDIT - add --skip_assembly when no bwa specified (#1769)
|
2 years ago |
|
transdecoder
|
Transdecoder predict (#1251)
|
2 years ago |
|
trimgalore
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
trimmomatic
|
Trimmomatic (#1757)
|
2 years ago |
|
ucsc
|
Update stub for ucsc/wigtobigwig (#2065)
|
2 years ago |
|
ultra
|
New modules: `ultra/index` and `ultra/align` (#1830)
|
2 years ago |
|
umitools
|
Fix Conda tests
|
2 years ago |
|
unicycler
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
untar
|
Fix for nested directories in tar archive (#2062)
|
2 years ago |
|
unzip
|
Untar unzip meta (#1408)
|
2 years ago |
|
vardictjava
|
Added java options to vardict java (#1695)
|
2 years ago |
|
variantbam
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
vcf2db
|
new module vcf2db (#1795)
|
2 years ago |
|
vcf2maf
|
vcf2maf module with built in VEP (#1768)
|
2 years ago |
|
vcfanno
|
small changes to vcfanno (#1804)
|
2 years ago |
|
vcflib/vcfuniq
|
Bump tool versions for modules required in viralrecon (#1859)
|
2 years ago |
|
vcftools
|
Update all modules to new NF DSL2 syntax (#1099)
|
3 years ago |
|
vsearch
|
New module: Vsearch sintax (#2094)
|
2 years ago |
|
whamg
|
New module: Whamg (#1994)
|
2 years ago |
|
yara
|
Add samtools index to yara_mapper module (#1353)
|
2 years ago |
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