Skip to content

Error in demultiplex.py with 3' barcode #203

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
CharlotteAnne wants to merge 1 commit into
base: master
Choose a base branch
from
Open

Error in demultiplex.py with 3' barcode #203

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
4 changes: 2 additions & 2 deletions iCount/demultiplex.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -175,13 +175,13 @@ def _extract(reads, barcodes, **kwargs):

def add_randomer_to_header(randomer, fq_entry):
"""Add randomer info to FASTQ header."""
match = re.match(r'.*(:rbc:)([ACGT]+).*', fq_entry.id)
match = re.match(r'.*(:rbc:)([ACGTN]+).*', fq_entry.id)
if match:
# Handle the case where randomer is already in the header.
rbc = match.group(2)
randomer = randomer + rbc

fq_entry.id = re.sub(r':rbc:[ACGT]+', '', fq_entry.id)
fq_entry.id = re.sub(r':rbc:[ACGTN]+', '', fq_entry.id)

if fq_entry.id[-2:] in ['/1', '/2']:
# For early versions of Illumina, keep mate info at the end:
Expand Down