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32 Open 28 Closed
32 Open 28 Closed
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Issues list

Issues with 'annotate' and 16-element arrays
#208 opened Oct 19, 2023 by hdm-23
ModuleNotFoundError: No module named 'ordered_set'
#207 opened Oct 5, 2023 by xuxia10
1
pysam output issue
#199 opened Mar 28, 2023 by voyn
1
@jamestwebber
4
stream read less than specified amount, expected 4, found 0
#197 opened Jan 19, 2023 by TinyTasy
2
random segment extraction no longer an option?
#190 opened Nov 14, 2022 by morellr
1
tagfix does not update the cigar tag bug Something isn't working
#178 opened Nov 3, 2022 by jonn-smith
New segment cigars need to be refactored bug Something isn't working
#177 opened Nov 3, 2022 by jonn-smith
models --dump graph png output needs a better layout algorithm. enhancement New feature or request good first issue Good for newcomers
#176 opened Nov 2, 2022 by jonn-smith
New models command no longer dumps all file formats of models to disk. bug Something isn't working High Priority
#175 opened Nov 2, 2022 by jonn-smith
Move to .sam files for all test data good first issue Good for newcomers tests Issues related to testing / test infrastructure
#174 opened Nov 2, 2022 by jonn-smith
XQ tag has an off-by-one error in its calculations bug Something isn't working
#171 opened Oct 13, 2022 by jonn-smith
documentation on how to create new models
#170 opened Sep 28, 2022 by krobison13
2
We need to store the segments that sift generates in a new tag in the reads (NOT the sg tag). High Priority
#164 opened Sep 20, 2022 by jonn-smith
Add warning to correct if the user is using more than 1 thread.
#162 opened Sep 20, 2022 by jonn-smith
Fix PyPi failures bug Something isn't working High Priority
#155 opened Aug 30, 2022 by jonn-smith
Must add sift step to longbow stats enhancement New feature or request
#153 opened Aug 29, 2022 by jonn-smith
Sift tool must be updated to work for arbitrary models / libraries enhancement New feature or request High Priority
#150 opened Aug 22, 2022 by jonn-smith
Review pyro and newest version of pomegranate for HMM improvements enhancement New feature or request
#147 opened Aug 18, 2022 by jonn-smith
segment UMI/CBC filtering is currently broken bug Something isn't working
#146 opened Aug 18, 2022 by jonn-smith
Splitting the segmented bam file? enhancement New feature or request
#143 opened Jul 26, 2022 by ashokpatowary
8
Add barcode-peek command to identify which barcode list to use enhancement New feature or request
#142 opened Jul 26, 2022 by jonn-smith
How to select models for anno
#140 opened Jul 6, 2022 by hmyh1202
2
Longbow stats should include the number of array reads that pass longbow filtering
#132 opened Apr 12, 2022 by jonn-smith
Segment annotates all leading array elements with START instead of their leading adapter bug Something isn't working High Priority
#130 opened Mar 31, 2022 by jonn-smith
missing umi and/or cell tag from alligned reads after longbow processing
#127 opened Mar 11, 2022 by khandaud15
1
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