Docker images
Bioinformatic tools used by PipeCraft2 are stored on Dockerhub as Docker images. These images can be used to launch any tool with the Docker CLI to utilize the compiled tools.
Images in use
Image |
Software |
|---|---|
pipecraft/vsearch_dada2:1 |
vsearch v2.22.1, dada2 v1.20, seqkit v2.3.0, lulu v0.1.0, R, GNU parallel |
ewels/multiqc:latest |
mutliqc v1.12 |
staphb/fastqc:0.11.9 |
fastqc v0.11.9 |
pipecraft/cutadapt:3.5 |
cutadapt v3.5, seqkit v2.3.0, python3, biopython |
pipecraft/dada2:1.20 |
dada2 v1.20, seqkit v2.3.0, lulu v0.1.0, R |
pipecraft/reorient:1 |
fqgrep v0.4.4, seqkit v2.3.0 |
pipecraft/trimmomatic:0.39 |
trimmomatic 0.39, seqkit v2.3.0 |
pipecraft/vsearch:2.18 |
vsearch v2.18, seqkit v2.3.0, GNU parallel |
pipecraft/itsx:1.1.3 |
ITSx v1.1.3, seqkit v2.3.0, mothur v1.46.1 |
pipecraft/deicode:0.2.4 |
DEICODE v0.2.4, qiime2-2002.2 |
pipecraft/fastp:0.23.2 |
fastp v0.23.2 |
pipecraft/blast:2.12 |
BLAST 2.12.0+, biopython, python3, gawk |
Other images
Image |
Software |
|---|---|
pipecraft/dada2:1.20 |
dada2 v1.20, seqkit v2.3.0, lulu v0.1.0, R |
pipecraft/vsearch:2.18 |
vsearch v2.18, seqkit v2.3.0, GNU parallel |