nf-core/mageck/test @ 0.0.0-6c4ed3a
Summary
Mageck test performs a robust ranking aggregation (RRA) to identify positively or negatively selected genes in functional genomics screens.
Get started
Add the following snippet to your workflow script to include this module.
include { MAGECK_TEST } from 'nf-core/mageck/test'
License
MIT License
Name
|
MAGECK_TEST |
|---|
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
count_table
file
|
Count table file. Each line in the table should include sgRNA name (1st column), target gene (2nd column) and read counts in each sample. *.{txt,tsv}
|
r_script
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.R
file
|
R script allowing to output plots from main hit genes *.R
|
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
gene_summary
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.gene_summary.txt
file
|
Gene summary file describing the fitness score and associated p-values. *.{gene_summary.txt}
|
sgrna_summary
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.sgrna_summary.txt
file
|
sgRNA summary file describing the sgRNA and associated gene *.{sgrna_summary.txt}
|
| Tool | Description | Homepage |
|---|---|---|
| mageck | MAGeCK (Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout), an algorithm to process, QC, analyze and visualize CRISPR screening data. | https://sourceforge.net/p/mageck/wiki/Home/#mle |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:29:14 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fmageck%2Ftest/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/mageck/test/blobs/sha256:88226f6c7d2260134822f222857fc18007b928f53bf2304a6c739650391babbe |
| Size | 3.0 KB |
| Checksum | sha256:88226f6c7d2260134822f222857fc18007b928f53bf2304a6c739650391babbe |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:29:14 (UTC) | 4 | 3.0 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:20:46 (UTC) | 3 | 3.0 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:15:07 (UTC) | 3 | 3.0 KB |