nf-core/atacseq
ATAC-seq peak-calling and QC analysis pipeline
atac-seqchromatin-accessibiity
These pages are for an old version of the pipeline (
Launch version 1.2.0 https://github.com/nf-core/atacseq 1.2.0
). The latest
stable release is
2.1.2
.
required
type:
string
type:
boolean
type:
integer
type:
string
type:
string
default:
./results
type:
string
pattern:
^([a-zA-Z0-9_\-\.]+)@([a-zA-Z0-9_\-\.]+)\.([a-zA-Z]{2,5})$
type:
string
type:
string
type:
string
type:
string
type:
string
type:
string
type:
string
type:
string
type:
string
type:
boolean
hidden
type:
string
default:
s3://ngi-igenomes/igenomes/
hidden
type:
boolean
type:
integer
type:
integer
type:
integer
type:
integer
type:
integer
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
integer
type:
boolean
type:
boolean
hidden
type:
string
default:
$baseDir/assets/bamtools_filter_pe.json
hidden
type:
string
default:
$baseDir/assets/bamtools_filter_se.json
type:
boolean
type:
number
default:
0.1
type:
number
type:
number
type:
integer
default:
1
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
type:
boolean
hidden
type:
string
default:
master
hidden
type:
string
default:
https://raw.githubusercontent.com/nf-core/configs/master
hidden
type:
string
hidden
type:
string
hidden
type:
string
hidden
type:
string
hidden
type:
integer
default:
16
hidden
type:
string
default:
128.GB
hidden
type:
string
default:
240.h
hidden
type:
boolean
hidden
type:
integer
default:
500000
hidden
type:
string
hidden
type:
string
hidden
type:
string
pattern:
^([a-zA-Z0-9_\-\.]+)@([a-zA-Z0-9_\-\.]+)\.([a-zA-Z]{2,5})$
hidden
type:
boolean
hidden
type:
string
default:
25.MB
hidden
type:
boolean
hidden
type:
string
hidden
type:
string
default:
${params.outdir}/pipeline_info
hidden
type:
string