Dockerfile repository for Bioinformatics
- Images on Docker Hub:
- abra2
- alfred
- ascat
- bamsnap
- bcftools
- bedops
- bedtools
- bioconda
- bowtie2
- bwa
- bwa-mem2
- cufflinks
- cnvkit
- cnvnator
- cutadapt
- delly
- dicey
- elprep
- fastp
- fastq-dump
- fastqc
- fgbio
- freec
- gatk
- gencore
- gffread
- gridss
- goleft
- hisat2
igv- igv-webapp
- jbrowse
- kallisto
last- lumpy
- macs2
- manta
- miso
- msisensor
- msisensor-pro
- multiqc
- nirvana
oncotator- picard
pindel- prinseq
- rsem
- sambamba
- samplot
- samtools
- seqkit
- sequenza
- sigprofiler
smoove- snpeff
- star
- strelka
- svtools
- trim_galore
- trimmomatic
- varscan
- vep
- Images requiring a user build:
- annovar
- bcl2fastq
- Images outside this repository:
-
Pull an image
$ docker-compose pull <name>
-
Build an image
$ docker-compose build <name>
Some images use the following tools:
- print-github-tags
- Tiny command to fetch repository tags or releases from GitHub
- GitHub - dceoy/print-github-tags
- clir
- R package manager for command line interface
- GitHub - dceoy/clir
- DockerHub - dceoy/clir
- abra2
- alfred
- annovar
- ascat
- bamsnap
- bcftools
- bcl2fastq
- bedops
- bedtools
- bioconda
- bowtie2
- bwa
- bwa-mem2
- canvas
- cn.mops
- cnvkit
- cufflinks
- cutadapt
- deepvariant
- delly
- dicey
- elprep
- fastp
- fastq-dump
- fastqc
- fgbio
- freec
- gatk
- gencore
- gffread
- gridss
- goleft
- hisat2
- igv:
- igv-webapp:
- jbrowse
- kallisto
- last
- lumpy
- macs2
- manta
- miso
- msisensor
- msisensor-pro
- multiqc
- nirvana
- oncotator
- picard
- pindel
- prinseq
- rsem
- sambamba
- samplot
- samtools
- seqkit
- sequenza
- sigprofiler
- smoove
- snpeff
- star
- strelka
- svtools
- trim_galore
- trimmomatic
- varscan
- vep