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91 Open 195 Closed
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Issues list

How does Modkit handle long-read methylation 3D genomic data
#289 opened Oct 24, 2024 by biozzq
result from "modkit pileup" command question Looking for clarification on inputs and/or outputs
#288 opened Oct 22, 2024 by Flower9618
4
Modkit calling methylation on incompatible nucleotide question Looking for clarification on inputs and/or outputs
#286 opened Oct 20, 2024 by Ge0rges
15
Indexing error in dmr multi bug Something isn't working DMR modkit dmr troubleshooting workflow and data preparation questions
#285 opened Oct 18, 2024 by Ge0rges
4
Inferring Hypermethylated and Hypomethylated Bases from ModKit DMR Pair Results question Looking for clarification on inputs and/or outputs
#283 opened Oct 18, 2024 by Bhavesh-Tiwarekar
1
benchmark comparison of DMR detection tool DMR modkit dmr documentation Improvements or additions to documentation
#281 opened Oct 17, 2024 by charliechen912ilovbash
2
modkit dmr pair of pileup bed file subset to 4mC troubleshooting workflow and data preparation questions
#279 opened Oct 15, 2024 by SimonChen1997
5
Validity of correlation between different RNA modification calls enhancement New feature or request question Looking for clarification on inputs and/or outputs
#278 opened Oct 14, 2024 by mbosm
1
m6A methylation analysis and explanation of output files question Looking for clarification on inputs and/or outputs
#276 opened Oct 8, 2024 by JhinJhinJhin
6
Redundant motifs from modkit motif search enhancement New feature or request
#272 opened Sep 30, 2024 by galenptacek
4
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
8
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
9
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
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