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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.
| 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 |
| 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 |
