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ZipperBams failed. Error: processed all unmapped reads but there are mapped reads remaining to be read.
question
#978
opened Apr 10, 2024 by
teryyoung
GroupReadsByUmi filtered reads number does not cover all filtered reads?
question
#972
opened Mar 8, 2024 by
milnikol
feature request: add option to FilterBam to write filtered reads to separate file
enhancement
help wanted
#971
opened Mar 1, 2024 by
eboyden
GroupReadsByUmi duplicate marking may fail when secondary and supplementary alignments are included
#961
opened Jan 29, 2024 by
nh13
SetMateInformation should add the MQ tag to any supplementary alignments
#960
opened Jan 26, 2024 by
msto
Documentation for custom SAM tags from CallDuplexConsensusReads
question
#959
opened Jan 24, 2024 by
BrettLiddell
CopyUmiFromReadName should support reverse-complemented UMIs prefixed by "r"
#957
opened Jan 19, 2024 by
msto
Extend Read Structures operators for reverse-complemented structures
#949
opened Nov 13, 2023 by
galaxy001
Support NCBI sequence_report.jsonl as input for CollectAlternateContigNames
enhancement
#945
opened Oct 19, 2023 by
ghuls
SamReader.query() should handle when coordinates are given < 1 or > end of contig
#943
opened Oct 18, 2023 by
tfenne
Allow multiple trim lengths or read structure in TrimFastq
enhancement
#927
opened Aug 14, 2023 by
bkohrn
Does CallMolecularConsensusReads handle overlapping fragments?
question
#926
opened Aug 7, 2023 by
kcibul
Use GroupReadsByUmi for standard duplicate marking?
enhancement
help wanted
#906
opened Mar 25, 2023 by
eboyden
GroupReadsByUmi "identity" may be unnecessary?
enhancement
help wanted
#905
opened Mar 25, 2023 by
eboyden
ZipperBams error about RGID
enhancement
help wanted
question
#902
opened Feb 6, 2023 by
esamorodnitsky
CallMolecularConsensusReads vs. CallOverlappingConsensusBases vs. CallDuplexConsensusReads
#899
opened Feb 2, 2023 by
esamorodnitsky
Write a guide on "so you have UMIs in your data, here's how to get to a standardized BAM" with fgbio
#890
opened Dec 8, 2022 by
nh13
require-single-strand-agreement on BAM that contains both duplex and single-strand consensus reads
#889
opened Nov 25, 2022 by
gevro
CallOverlappingConsensusBases vs "consensus-call-overlapping-bases" in CallDuplexConsensusReads
#886
opened Nov 24, 2022 by
gevro
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