..
adapterremoval
new module: AdapterRemoval ( #309 )
2021-03-22 17:16:04 +00:00
allelecounter
Add alleleCounter module ( #313 )
2021-03-23 14:37:53 +01:00
bandage /image
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
bcftools
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
bedtools
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
bismark
bismark/report: allow missing input data ( #400 )
2021-04-06 10:59:00 +01:00
blast
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
bowtie
Add default output dir for modules that create indices, updated ( #336 )
2021-03-23 17:55:01 +00:00
bowtie2
Add default output dir for modules that create indices, updated ( #336 )
2021-03-23 17:55:01 +00:00
bwa
Update test paths in bwa mappers ( #387 )
2021-03-25 09:24:21 +00:00
bwamem2
Update test paths in bwa mappers ( #387 )
2021-03-25 09:24:21 +00:00
bwameth
update bwameth container build to match conda version ( #402 )
2021-04-06 10:45:14 +01:00
cat /fastq
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
cnvkit
cnvkit module ( #173 )
2021-03-22 15:27:30 -07:00
cutadapt
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
deeptools
Remove def from module options definition in main ( #270 )
2021-03-15 12:16:43 +00:00
dsh
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
fastp
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
fastqc
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
fasttree
adding fasttree module ( #412 )
2021-04-08 18:15:23 +01:00
fgbio
New modules: Fgbio callmolecularconsensusreads and sortbam ( #352 )
2021-03-28 20:38:50 +01:00
flash
Re-organise all test data ( #354 )
2021-03-24 09:53:41 +00:00
gatk4
gatk4 markduplicates ( #356 )
2021-03-26 23:25:40 +00:00
gffread
Fix nf-core modules lint tests ( #275 )
2021-03-16 17:16:47 +00:00
gubbins
new module: gubbins ( #377 )
2021-04-07 16:31:24 +01:00
gunzip
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
hisat2
Add tests for hisat2 ( #366 )
2021-03-25 21:08:46 +00:00
homer /annotatepeaks
Homer ( #330 )
2021-03-23 11:24:54 -07:00
ivar
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
kallisto /index
Add module kallisto/index ( #357 )
2021-03-24 12:25:39 +00:00
kallistobustools /ref
Added kallistobustools/ref ( #408 )
2021-04-09 09:41:41 +01:00
kraken2 /run
Add kraken2 run module ( #266 )
2021-03-18 13:08:06 +00:00
lib
style( #77 ): Fix editorconfig errors
2020-12-17 17:50:24 -06:00
macs2 /callpeak
Remove def from module options definition in main ( #270 )
2021-03-15 12:16:43 +00:00
methyldackel
MethylDackel: fix version scraping ( #401 )
2021-04-06 10:59:33 +01:00
minia
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
minimap2 /align
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
mosdepth
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
msisensor
Add module: nf-core hackathon #207 : new module: msisensor/msi ( #343 )
2021-03-25 16:46:00 -04:00
multiqc
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
nanoplot
Nanoplot and sequencing_summary.txt for Nanopore test data ( #364 )
2021-04-09 08:31:38 +01:00
optitype
Add in OptiType (configbuilder, type) module(s) ( #301 )
2021-03-23 16:48:05 +01:00
pangolin
Version bumps and minor module updates ( #406 )
2021-04-06 13:38:41 +01:00
phantompeakqualtools
Remove def from module options definition in main ( #270 )
2021-03-15 12:16:43 +00:00
picard
add picard_collectwgsmetrics ( #304 )
2021-03-22 17:05:59 +01:00
plasmidid
Add plasmidid module ( #410 )
2021-04-08 22:44:30 +01:00
preseq /lcextrap
Remove def from module options definition in main ( #270 )
2021-03-15 12:16:43 +00:00
prodigal
Prodigal ( #333 )
2021-03-23 11:03:58 -07:00
prokka
Add process label to prokka ( #350 )
2021-03-24 04:54:52 +00:00
qualimap
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
quast
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
rapidnj
add rapidnj module ( #421 )
2021-04-09 13:04:54 +01:00
rasusa
new module: rasusa ( #413 )
2021-04-09 13:10:32 +01:00
rsem
Version bumps and minor module updates ( #406 )
2021-04-06 13:38:41 +01:00
rseqc
Remove def from module options definition in main ( #270 )
2021-03-15 12:16:43 +00:00
salmon
Add default output dir for modules that create indices, updated ( #336 )
2021-03-23 17:55:01 +00:00
samtools
modified the samtools/fastq module ( #339 )
2021-03-23 17:43:52 +00:00
seacr /callpeak
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
seqkit /split2
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
sequenzautils
PR for sequenzautils/bam2seqz ( #395 )
2021-04-01 07:08:27 +02:00
seqwish /induce
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
shovill
Update shovill module ( #337 )
2021-03-24 04:57:41 +00:00
snpsites
New Snpsites module ( #416 )
2021-04-09 08:00:33 +01:00
sortmerna
Remove def from module options definition in main ( #270 )
2021-03-15 12:16:43 +00:00
spades
Version bumps and minor module updates ( #406 )
2021-04-06 13:38:41 +01:00
star
Add default output dir for modules that create indices, updated ( #336 )
2021-03-23 17:55:01 +00:00
strelka /germline
Re-organise all test data ( #354 )
2021-03-24 09:53:41 +00:00
stringtie
Remove def from module options definition in main ( #270 )
2021-03-15 12:16:43 +00:00
subread /featurecounts
Add tests for subread #106 ( #393 )
2021-04-01 20:02:36 +01:00
tabix
Fix tabix/bgzip version command ( #407 )
2021-04-07 08:39:53 +01:00
tiddit /sv
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
trimgalore
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
ucsc
ucsc_bed12tobigbed (previous pull request had conflicts) ( #302 )
2021-03-24 04:55:49 +00:00
umitools
Remove def from module options definition in main ( #270 )
2021-03-15 12:16:43 +00:00
unicycler
Adding unicycler module ( #307 )
2021-03-22 18:14:24 +01:00
untar
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
vcftools
add vcftools module ( #334 )
2021-03-24 04:54:23 +00:00
yara
Add YARA module ( #353 )
2021-03-24 17:14:52 +01:00
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