Due to a bug in pysam.fetch() paired end files with a large number of contigs could take a long time to process (see #93). This has now been resolved. Thanks to @gpratt for spotting and resolving this
Debug to support python 3.11. Thank you @sjaenick for bringing this to our attention and testing (#5...
Major release of PyOmicron 2.0.0 (see PR #135) removes the assumption that all analyzed time interv...
MPI is the de-facto standard message-passing based parallel programming model. However, the bug dete...
Due to a bug in pysam.fetch() paired end files with a large number of contigs could take a long time...
Improves run time for large networks (see #94, #31). Thanks to @gpratt for identifying the issue and...
(Sorry about the delay on the actual release!) Finally fixed handling of large numbers of contigs. T...
A long overdue release covering some minor functionality updates and bugfixes: Additional functional...
Minor update. Improves detection of duplicate reads with paired end reads, reduces run time with ded...
The code has been tweaked to improve run-time. See #69 for a discussion about the changes implemente...
Adds the new group command to group PCR duplicates and return the groups in a tagged BAM file and/or...
When using the directional method with the group command, the 'top' UMI within each group was not al...
Tweaks the way group handles paired end BAMs. To simplify the process and ensure all reads are writt...
When using the directional method with the group command, the 'top' UMI within each group was not al...
This release is intended to be a stable release with no plans for significant updates to UMI-tools f...
New features Adds '--umi-separator' option to umi_tools extract to specify UMI separator. Thanks @o...
Debug to support python 3.11. Thank you @sjaenick for bringing this to our attention and testing (#5...
Major release of PyOmicron 2.0.0 (see PR #135) removes the assumption that all analyzed time interv...
MPI is the de-facto standard message-passing based parallel programming model. However, the bug dete...
Due to a bug in pysam.fetch() paired end files with a large number of contigs could take a long time...
Improves run time for large networks (see #94, #31). Thanks to @gpratt for identifying the issue and...
(Sorry about the delay on the actual release!) Finally fixed handling of large numbers of contigs. T...
A long overdue release covering some minor functionality updates and bugfixes: Additional functional...
Minor update. Improves detection of duplicate reads with paired end reads, reduces run time with ded...
The code has been tweaked to improve run-time. See #69 for a discussion about the changes implemente...
Adds the new group command to group PCR duplicates and return the groups in a tagged BAM file and/or...
When using the directional method with the group command, the 'top' UMI within each group was not al...
Tweaks the way group handles paired end BAMs. To simplify the process and ensure all reads are writt...
When using the directional method with the group command, the 'top' UMI within each group was not al...
This release is intended to be a stable release with no plans for significant updates to UMI-tools f...
New features Adds '--umi-separator' option to umi_tools extract to specify UMI separator. Thanks @o...
Debug to support python 3.11. Thank you @sjaenick for bringing this to our attention and testing (#5...
Major release of PyOmicron 2.0.0 (see PR #135) removes the assumption that all analyzed time interv...
MPI is the de-facto standard message-passing based parallel programming model. However, the bug dete...
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