Missing line in cfDNA/data/Ensembl_v75/README

shendurelab / cfDNA

Analysis of epigenetic signals captured by fragmentation patterns of cell-free DNA

MIT License

62 stars 30 forks source link

Missing line in cfDNA/data/Ensembl_v75/README #2

Closed janrehker closed 8 years ago

janrehker commented 8 years ago

Hi, It seems there is line 4 missing in the README file which leads to an absent file that is needed for consecutive processing. My guess is that it would be something like: ./extractGeneBody.py | bgzip -c > ensemblv75_canonicalTranscriptIDs.protein_coding.lst.gz

Another issue: cfDNA/WPS_overlays/Maurano_et_al_TFclusters/README seems to refer to data/Maurano_et_al_func_var/hg19.taipale.recluster.counts in line 18. How do I get this file?

Thanks, Jan

makirc commented 8 years ago

I added the missing Ensembl file and added a line to cfDNA/WPS_overlays/Maurano_et_al_TFclusters/README for generating the count file. I hope this resolves your problems.