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277 files changed
+0
-6844
lines changed- tests/modules/nf-core
- abricate
- run
- summary
- art/illumina
- assemblyscan
- bcftools/reheader
- bcl2fastq
- bclconvert
- bismark
- align
- coverage2cytosine
- deduplicate
- genomepreparation
- methylationextractor
- report
- summary
- blast
- blastn
- blastp
- makeblastdb
- tblastn
- bowtie2
- align
- build_test
- bwa
- aln
- index
- mem
- sampe
- samse
- cat
- cat
- fastq
- chopper
- custom/getchromsizes
- cutadapt
- diamond
- blastp
- blastx
- makedb
- dragonflye
- eggnogmapper
- fastani
- fastp
- fastqc
- fastqscan
- flye
- foldseek
- createdb
- easysearch
- fq
- generate
- lint
- subsample
- gffread
- glimpse
- chunk
- concordance
- ligate
- phase
- sample
- gunzip
- hisat2
- align
- build_test
- extractsplicesites
- interproscan
- kallisto
- index
- quant
- kraken2/kraken2
- mafft
- medaka
- mlst
- multiqc
- nonpareil
- curve
- nonpareil
- set
- picard/markduplicates
- plink2
- extract
- score
- vcf
- pycoqc
- rasusa
- rsem
- calculateexpression
- preparereference
- rtgtools/rocplot
- salmon
- index
- quant
- samtools
- sort
- stats
- snakemake
- sortmerna
- sourmash/sketch
- star
- align
- genomegenerate
- svdb/query
- trimgalore
- trimmomatic
- ucsc
- bedclip
- bedgraphtobigwig
- umitools/extract
- untar
- vardictjava
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