Mercurial > repos > rnateam > bctools
comparison merge_pcr_duplicates.py @ 14:570a7de9f151 draft
read from bam; fix header issue
| author | rnateam |
|---|---|
| date | Mon, 30 Nov 2015 07:53:36 -0500 |
| parents | 17ef0e0dae68 |
| children | 0b9aab6aaebf |
comparison
equal
deleted
inserted
replaced
| 13:258b6f9e19ab | 14:570a7de9f151 |
|---|---|
| 110 alns = pd.read_csv( | 110 alns = pd.read_csv( |
| 111 args.alignments, | 111 args.alignments, |
| 112 sep="\t", | 112 sep="\t", |
| 113 names=["chrom", "start", "stop", "read_id", "score", "strand"]) | 113 names=["chrom", "start", "stop", "read_id", "score", "strand"]) |
| 114 | 114 |
| 115 # keep id parts up to first whitespace | |
| 116 alns["read_id"] = alns["read_id"].str.split(' ').str.get(0) | |
| 117 | |
| 115 # combine barcode library and alignments | 118 # combine barcode library and alignments |
| 116 bcalib = pd.merge( | 119 bcalib = pd.merge( |
| 117 bcs, alns, | 120 bcs, alns, |
| 118 on="read_id", | 121 on="read_id", |
| 119 how="inner", | 122 how="inner", |