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nf-core_modules/software
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Jose Espinosa-Carrasco 313241749c
Add kraken2 run module (#266) 
* Add kraken2 run module

* Add kraken2 run module

* Add coronavirus kraken2 db

* Adding kraken2 run tests

* Update software/kraken2/run/meta.yml

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>

* Fixing files commited by mistake

* Remove params for meta.yml

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-03-18 13:08:06 +00:00
..
bandage/image Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bcftools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bedtools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bismark Fix nf-core modules lint tests (#275) 2021-03-16 17:16:47 +00:00
blast Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bowtie Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bowtie2 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bwa Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bwamem2 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bwameth Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
cat/fastq Fix nf-core modules lint tests (#275) 2021-03-16 17:16:47 +00:00
cutadapt Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
deeptools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
dsh Update dsh-bio to 2.0.3 (#276) 2021-03-18 13:06:56 +00:00
fastp Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
fastqc Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
gatk4 add mergebamalignment (#259) 2021-03-17 15:56:56 +01:00
gffread Fix nf-core modules lint tests (#275) 2021-03-16 17:16:47 +00:00
gunzip Fix nf-core modules lint tests (#275) 2021-03-16 17:16:47 +00:00
hisat2 Fix nf-core modules lint tests (#275) 2021-03-16 17:16:47 +00:00
homer/annotatepeaks Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
ivar Rename .github/filters.yml -> tests/config/pytest_software.yml (#271) 2021-03-15 12:51:30 +00:00
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 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
minia Adding minia for viralrecon (#267) 2021-03-17 12:54:15 +01:00
minimap2/align Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
mosdepth Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
multiqc Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
pangolin Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
phantompeakqualtools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
picard Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
preseq/lcextrap Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
qualimap Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
quast Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
rsem Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
rseqc Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
salmon Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
samtools Fix nf-core modules lint tests (#275) 2021-03-16 17:16:47 +00:00
seacr/callpeak Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
seqkit/split2 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
seqwish/induce Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
sortmerna Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
star Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
stringtie Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
subread/featurecounts Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
tabix Fix nf-core modules lint tests (#275) 2021-03-16 17:16:47 +00:00
tiddit/sv Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
trimgalore Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
ucsc/bedgraphtobigwig Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
umitools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
untar Fix nf-core modules lint tests (#275) 2021-03-16 17:16:47 +00:00
functions.nf Add kraken2 run module (#266) 2021-03-18 13:08:06 +00:00