Description

Software for predicting library complexity and genome coverage in high-throughput sequencing

Input

name:type
description
pattern

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

bam{:bash}

:file

BAM/CRAM/SAM file

*.{bam,cram,sam}

Output

name:type
description
pattern

lc_extrap{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.lc_extrap.txt{:bash}

:file

File containing output of Preseq lcextrap

*.{lc_extrap.txt}

log{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.log{:bash}

:file

Log file containing stderr produced by Preseq

*.{log}

versions_preseq{:bash}

${task.process}{:bash}

:string

The name of the process

preseq{:bash}

:string

The name of the tool

preseq 2>&1 | sed -n 's/.*Version: \(.*\)/\1/p'{:bash}

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions{:bash}

${task.process}{:bash}

:string

The name of the process

preseq{:bash}

:string

The name of the tool

preseq 2>&1 | sed -n 's/.*Version: \(.*\)/\1/p'{:bash}

:eval

The expression to obtain the version of the tool

Tools

preseq
GPL

Software for predicting library complexity and genome coverage in high-throughput sequencing

http://smithlabresearch.org/software/preseq http://smithlabresearch.org/wp-content/uploads/manual.pdf https://github.com/smithlabcode/preseq
included in
atacseqchipseqcutandrungenomicrelatednessmethylseqnascentrnaseq
maintainers
Github user drpatelh
Github user edmundmiller
get in touch
Ask a question on Slack Open an issue on GitHub