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Issues list

Compare methylation at a position between different genotype groups
#318 opened Dec 15, 2024 by sumudu-rangika
4
How to annotate bedmethyl file with cpg name instead of chr name and position and How can I find the pvalue for association of the cpg with the phenotype? question Looking for clarification on inputs and/or outputs
#317 opened Dec 15, 2024 by ralanany
1
modkit DMR result not as expected question Looking for clarification on inputs and/or outputs
#316 opened Dec 13, 2024 by baibhav-bioinfo
3
Error (0658) troubleshooting workflow and data preparation questions
#315 opened Dec 11, 2024 by ramnageena11
1
Sorting of extract calls output and tabix indexing question Looking for clarification on inputs and/or outputs
#313 opened Dec 10, 2024 by richardheery
1
How to get gzipped tab-separated-values (tabix file) from bedmethyl file generated by modkit, for down stream analysis by nanomethviz R package? question Looking for clarification on inputs and/or outputs
#312 opened Dec 10, 2024 by ralanany
6
Get haplotag info in modkit extract enhancement New feature or request
#310 opened Dec 6, 2024 by rowanhowellGE
1
fetching sequence failed error message when running pileup question Looking for clarification on inputs and/or outputs
#308 opened Nov 27, 2024 by niradsp
3
What does it say about our data that the m6a RNA modification rates seem somewhat low? question Looking for clarification on inputs and/or outputs
#307 opened Nov 27, 2024 by aleighbrown
4
High memory usage of modkit extract full troubleshooting workflow and data preparation questions
#306 opened Nov 27, 2024 by Shians
3
Question about the appropriate threshold for mod_qual question Looking for clarification on inputs and/or outputs
#305 opened Nov 25, 2024 by gyuhee0928
5
Entropy on strand enhancement New feature or request
#301 opened Nov 18, 2024 by Ge0rges
5
No methylation information was calculated for some reads troubleshooting workflow and data preparation questions
#299 opened Nov 13, 2024 by Wshengquan
3
Passing concated pileup to find-motifs question Looking for clarification on inputs and/or outputs
#298 opened Nov 12, 2024 by Ge0rges
2
Filtering accuracy question question Looking for clarification on inputs and/or outputs
#297 opened Nov 8, 2024 by Ge0rges
9
modkit extract full and modkit extract calls question Looking for clarification on inputs and/or outputs
#296 opened Nov 6, 2024 by Flower9618
3
Using segmenting on differential methylation question Looking for clarification on inputs and/or outputs
#295 opened Nov 5, 2024 by Raya-Faigenbaum-Romm
2
dmr multi will not create necessary directories bug Something isn't working troubleshooting workflow and data preparation questions
#294 opened Nov 5, 2024 by Yang990-sys
13
Documentation ambiguity documentation Improvements or additions to documentation
#293 opened Oct 31, 2024 by Ge0rges
1
how is calculate valid_coverage ? Different results between total read or subsample reads question Looking for clarification on inputs and/or outputs
#292 opened Oct 29, 2024 by DelphIONe
1
Install failed: fatal error: '-fuse-linker-plugin', but liblto_plugin.so not found troubleshooting workflow and data preparation questions
#291 opened Oct 28, 2024 by liuyang2006
1
How does Modkit handle long-read methylation 3D genomic data question Looking for clarification on inputs and/or outputs
#289 opened Oct 24, 2024 by biozzq
1
result from "modkit pileup" command question Looking for clarification on inputs and/or outputs
#288 opened Oct 22, 2024 by Flower9618
5
Modkit calling methylation on incompatible nucleotide question Looking for clarification on inputs and/or outputs
#286 opened Oct 20, 2024 by Ge0rges
17
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
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