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Allocate more RAM to the process running MACS2 #48

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merged 5 commits into from
Sep 30, 2019
Merged

Allocate more RAM to the process running MACS2 #48

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d5db29c
Merge pull request #24 from nf-core/dev
drpatelh Mar 5, 2019
c65bf6c
Merge pull request #29 from nf-core/dev
apeltzer Apr 9, 2019
b2b8af7
Add Zenodo doi
drpatelh Jun 5, 2019
c8d57b5
Merge pull request #38 from nf-core/doi
apeltzer Jun 5, 2019
fc5c79d
Allocate more RAM to the process running MACS2
jinmingda Sep 29, 2019
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8 changes: 8 additions & 0 deletions README.md
100755 → 100644
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Expand Up @@ -6,6 +6,7 @@

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg)](http://bioconda.github.io/)
[![Docker](https://img.shields.io/docker/automated/nfcore/atacseq.svg)](https://hub.docker.com/r/nfcore/atacseq)
[![DOI](https://zenodo.org/badge/156259074.svg)](https://zenodo.org/badge/latestdoi/156259074)

### Introduction

Expand Down Expand Up @@ -74,3 +75,10 @@ The pipeline was developed by [Harshil Patel](mailto:harshil.patel@crick.ac.uk).
The [nf-core/rnaseq](https://github.com/nf-core/rnaseq) and [nf-core/chipseq](https://github.com/nf-core/chipseq) pipelines developed by Phil Ewels were initially used as a template for this pipeline. Many thanks to Phil for all of his help and advice, and the team at SciLifeLab.

Many thanks to others who have helped out along the way too, including (but not limited to): [@apeltzer](https://github.com/apeltzer), [@sven1103](https://github.com/sven1103), [@MaxUlysse](https://github.com/MaxUlysse), [@micans](https://github.com/micans), [@pditommaso](https://github.com/pditommaso).

## Citation

If you use nf-core/atacseq for your analysis, please cite it using the following doi: [10.5281/zenodo.2634132](https://doi.org/10.5281/zenodo.2634132)

You can cite the `nf-core` pre-print as follows:
Ewels PA, Peltzer A, Fillinger S, Alneberg JA, Patel H, Wilm A, Garcia MU, Di Tommaso P, Nahnsen S. **nf-core: Community curated bioinformatics pipelines**. *bioRxiv*. 2019. p. 610741. [doi: 10.1101/610741](https://www.biorxiv.org/content/10.1101/610741v1).
4 changes: 2 additions & 2 deletions main.nf
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Expand Up @@ -916,7 +916,7 @@ process merge_library_bigwig {
*/
process merge_library_macs {
tag "$name"
label 'process_long'
label 'process_medium'
publishDir "${params.outdir}/bwa/mergedLibrary/macs", mode: 'copy',
saveAs: {filename ->
if (filename.endsWith(".tsv")) "qc/$filename"
Expand Down Expand Up @@ -1338,7 +1338,7 @@ process merge_replicate_bigwig {
*/
process merge_replicate_macs {
tag "$name"
label 'process_long'
label 'process_medium'
publishDir "${params.outdir}/bwa/mergedReplicate/macs", mode: 'copy',
saveAs: {filename ->
if (filename.endsWith(".tsv")) "qc/$filename"
Expand Down