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89 Open 183 Closed
89 Open 183 Closed
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Issues list

IGV shows Coverage not methylation values from BedMethyl
#275 opened Oct 3, 2024 by sahuno
uncertain strand direction in the pileup bed file
#274 opened Oct 2, 2024 by SimonChen1997
1
Redundant motifs from modkit motif search
#272 opened Sep 30, 2024 by galenptacek
2
Request: additional output columns for extract enhancement New feature or request
#270 opened Sep 28, 2024 by OberonDixon
1
Difference in total counts of each probability per modification in different pore chemistries question Looking for clarification on inputs and/or outputs
#269 opened Sep 26, 2024 by eesiribloom
5
adjust-mods for skipped reads question Looking for clarification on inputs and/or outputs
#268 opened Sep 25, 2024 by ekushele
1
Strange bias between percent_modified and valid_coverage from modkit pileup question Looking for clarification on inputs and/or outputs
#262 opened Sep 13, 2024 by flofloflo-cell
8
Normalized the DMR scores question Looking for clarification on inputs and/or outputs
#261 opened Sep 13, 2024 by Congnguyenn
4
Merge bedmethyl file enhancement New feature or request
#260 opened Sep 12, 2024 by meydaria
1
how to interpret 5mC and 5hmC call for same position in the genome question Looking for clarification on inputs and/or outputs
#258 opened Sep 9, 2024 by dasn588
1
Using a negative control sample to inform thresholds? question Looking for clarification on inputs and/or outputs
#257 opened Sep 6, 2024 by hackkr
1
modkit pileup - modified based code = 17802 question Looking for clarification on inputs and/or outputs
#256 opened Sep 4, 2024 by reJELIN
1
Setting appropriate thresholds for calling m6A and pseU using modkit pileup - What to make of high Nfail numbers? question Looking for clarification on inputs and/or outputs
#255 opened Sep 2, 2024 by DepledgeLab
1
--call-mods not working on m6a question Looking for clarification on inputs and/or outputs
#252 opened Aug 28, 2024 by faulk-lab
3
How does modkit extract handle indels on reads? enhancement New feature or request question Looking for clarification on inputs and/or outputs
#249 opened Aug 21, 2024 by Fu-Yilei
4
modkit extract m6A tsv problems enhancement New feature or request
#246 opened Aug 9, 2024 by kir1to455
9
thread 'main' panicked, "index out of bounds: the len is 10 but the index is 10" build-available custom build produced for fix. troubleshooting workflow and data preparation questions
#244 opened Aug 7, 2024 by lucy924
9
Differential methylation scoring DMR modkit dmr question Looking for clarification on inputs and/or outputs
#243 opened Aug 5, 2024 by setshabaTaukobong
2
Number of reads processed by modkit question Looking for clarification on inputs and/or outputs
#241 opened Jul 30, 2024 by ZhihanNUS
4
Ignore multiple mods in adjust-mods enhancement New feature or request
#237 opened Jul 22, 2024 by Ge0rges
1
Support for generic MM tags? enhancement New feature or request
#235 opened Jul 19, 2024 by ADHDrian
2
modkit results look off for CHG and CHH contexts - plant methylation troubleshooting workflow and data preparation questions
#234 opened Jul 19, 2024 by colindaven
5
dmr multi doesn't handle replicates DMR modkit dmr enhancement New feature or request
#232 opened Jul 15, 2024 by Ge0rges
2
Parsing input error logging Additional information should be logged troubleshooting workflow and data preparation questions
#231 opened Jul 15, 2024 by Ge0rges
10
Version mismatch troubleshooting workflow and data preparation questions
#226 opened Jul 7, 2024 by rugilemat
2
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