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nf-core_modules/tests/software
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Robert A. Petit III 3f14b1fabe
Update shovill module (#337) 
* add shovill module

* removed deprecated shovill module

* fix line ending in functions.nf

* fix yaml indentation

* reduce spades memory usage

* update md5sums

* remove non reproducible md5sum

* Update test.yml

Remove last non-reproducible md5sum.

* purely cosmetic order change

* proper process label, improve output readability

Co-authored-by: Florian Wuennemann <flowuenne@gmail.com>
2021-03-24 04:57:41 +00:00
..
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 Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
bcftools Exchange VCF data by sarscov2 data (#261) 2021-03-09 10:04:08 +01:00
bedtools Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
bismark bismark: remove underscores from process names (#303) 2021-03-22 17:46:11 +01:00
blast Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
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 Add default output dir for modules that create indices, updated (#336) 2021-03-23 17:55:01 +00:00
bwamem2 Add default output dir for modules that create indices, updated (#336) 2021-03-23 17:55:01 +00:00
bwameth Add default output dir for modules that create indices, updated (#336) 2021-03-23 17:55:01 +00:00
cat/fastq Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
cnvkit cnvkit module (#173) 2021-03-22 15:27:30 -07:00
cutadapt Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
dsh Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
fastp Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
fastqc Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
gatk4 Add gatk4/baserecalibrator (#327) 2021-03-23 18:32:37 +01:00
gffread Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
gunzip Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
homer/annotatepeaks Homer (#330) 2021-03-23 11:24:54 -07:00
ivar Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
kraken2/run Add kraken2 run module (#266) 2021-03-18 13:08:06 +00:00
methyldackel Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
minia Adding minia for viralrecon (#267) 2021-03-17 12:54:15 +01:00
minimap2/align Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
mosdepth Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
multiqc Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
optitype Add in OptiType (configbuilder, type) module(s) (#301) 2021-03-23 16:48:05 +01:00
pangolin add task.cpus to pangolin (#263) 2021-03-10 09:02:23 +01:00
picard add picard_collectwgsmetrics (#304) 2021-03-22 17:05:59 +01:00
preseq/lcextrap Fix preseq tests 2021-02-03 17:28:44 +00:00
prodigal Prodigal (#333) 2021-03-23 11:03:58 -07:00
prokka add prokka module (#298) 2021-03-23 02:51:23 -07:00
qualimap/bamqc Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
quast Converge test data usage (#249) 2021-03-04 10:10:57 +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 Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
seqkit/split2 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
seqwish/induce Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
shovill Update shovill module (#337) 2021-03-24 04:57:41 +00:00
spades Add spades module (#277) 2021-03-18 13:48:38 +00:00
star Add default output dir for modules that create indices, updated (#336) 2021-03-23 17:55:01 +00:00
stringtie Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
tabix Exchange VCF data by sarscov2 data (#261) 2021-03-09 10:04:08 +01:00
tiddit/sv Update main.nf (#314) 2021-03-22 17:16:43 +00:00
trimgalore Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
ucsc ucsc_bed12tobigbed (previous pull request had conflicts) (#302) 2021-03-24 04:55:49 +00:00
unicycler Adding unicycler module (#307) 2021-03-22 18:14:24 +01:00
untar Converge test data usage (#249) 2021-03-04 10:10:57 +00:00
vcftools add vcftools module (#334) 2021-03-24 04:54:23 +00:00