Commit d8382e13 authored by Tommy Tang's avatar Tommy Tang
Browse files

add to do list

parent 542930fb
......@@ -27,6 +27,8 @@ biocLite("SRAdb")
Rscript sraDownload.R -a ascp -QT -l 300m -i ~/.aspera/connect/etc/asperaweb_id_dsa.openssh -t fastq SRR3144652
```
This script will download the meta file for each SRR id as well.
* aspera for downloading
check this blog post by MARK ZIEMANN http://genomespot.blogspot.com/2015/05/download-sra-data-with-aspera-command.html
......@@ -266,3 +268,9 @@ snakemake -n -R `snakemake --list-code-changes`
```
### TO DO list
**provide a output directory** now everything will be output in the current GEOpyflow-ChIPseq directory in a structured fasion. : `00log`, `01seq`, `02fqc`, `03aln` etc
**work for paired-end ChIPseq as well** now only for single-end.
**put everything in docker**
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