Mercurial > repos > triasteran > ribogalaxy_umi_processing
changeset 3:d27375bc4a1c draft
Uploaded
| author | triasteran |
|---|---|
| date | Mon, 20 Jun 2022 08:02:35 +0000 |
| parents | 6958515efa76 |
| children | a580e700aac3 |
| files | UMI_riboseq_processing/UMI.py UMI_riboseq_processing/UMI_riboseq.xml |
| diffstat | 2 files changed, 5 insertions(+), 5 deletions(-) [+] |
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--- a/UMI_riboseq_processing/UMI.py Mon Jun 20 07:27:23 2022 +0000 +++ b/UMI_riboseq_processing/UMI.py Mon Jun 20 08:02:35 2022 +0000 @@ -19,14 +19,14 @@ seq = lines[1] sep = lines[2] qual = lines[3] - trimmed_seq = seq[2:-5]+"\n" # fooprint + barcode - UMI = seq[0:2]+seq[-5:].strip('\n') #7nt in total; 5'NN and last 3'NNNNN + trimmed_seq = seq[2:-6]+"\n" # fooprint + barcode + UMI = seq[0:2]+seq.rstrip()[-5:] #7nt in total; 5'NN and last 3'NNNNN split_header = header.split(" ") new_header = split_header[0]+"_"+UMI+" "+split_header[1] if qual[-1:] == "\n": - new_qual = qual[2:-5]+"\n" + new_qual = qual[2:-6]+"\n" else: - new_qual = qual[2:-5] + new_qual = qual[2:-6] output.write(new_header) output.write(trimmed_seq) output.write(sep)
--- a/UMI_riboseq_processing/UMI_riboseq.xml Mon Jun 20 07:27:23 2022 +0000 +++ b/UMI_riboseq_processing/UMI_riboseq.xml Mon Jun 20 08:02:35 2022 +0000 @@ -1,4 +1,4 @@ -<tool id="UMI_riboseq" name="move UMIs from reads to header" version="0.1.2"> +<tool id="UMI_riboseq" name="move UMIs from reads to header" version="0.1.3"> <requirements> </requirements> <command detect_errors="exit_code">