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120 Open 215 Closed
120 Open 215 Closed
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Issues list

--ref <REFERENCE_FASTA> is to select the reference genome or transcriptome question Looking for clarification on inputs and/or outputs
#338 opened Jan 10, 2025 by Tang-pro
2
Feature request enhancement New feature or request
#337 opened Jan 9, 2025 by kamaloxfordpathology
2
Samtools code for modkit repair documentation Improvements or additions to documentation
#336 opened Jan 9, 2025 by sandraionescu
1
failed to get modbase info for record 6bcfdea5-e9eb-4fc9-a72e-81744a77df80, Skipped: AUX data not found question Looking for clarification on inputs and/or outputs
#335 opened Jan 8, 2025 by Tang-pro
5
Missing contig after merge troubleshooting workflow and data preparation questions
#334 opened Jan 7, 2025 by Ge0rges
17
Impact of phosphorothioation on prediction accuracy
#333 opened Jan 6, 2025 by Ge0rges
1
FEATURE REQUEST: Extract/Calls reports number of CpG's covered in the sample
#332 opened Jan 6, 2025 by ethan-mcq
3
no m6A sites found in results question Looking for clarification on inputs and/or outputs troubleshooting workflow and data preparation questions
#331 opened Jan 4, 2025 by baibhav-bioinfo
1
Finding motifs in a metagenome question Looking for clarification on inputs and/or outputs
#330 opened Jan 4, 2025 by Ge0rges
3
Thank you, for the amazing tool, I have 9 bedmethyl files(4 control and 5 disease cases), these files generated from modkit tool. I have some questions question Looking for clarification on inputs and/or outputs
#328 opened Jan 2, 2025 by ralanany
1
Clarification on Modkit DMR Pair Results and Validate Accuracy question Looking for clarification on inputs and/or outputs
#327 opened Dec 31, 2024 by BrendanBeahan
4
Out of memory in modkit find-motifs troubleshooting workflow and data preparation questions
#323 opened Dec 27, 2024 by hannan666666
4
EOY release and thank you good first issue Good for newcomers
#320 opened Dec 21, 2024 by ArtRand
Failed to read fasta index (error 2) troubleshooting workflow and data preparation questions
#319 opened Dec 20, 2024 by ramnageena11
5
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
4
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
2
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
7
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
7
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
5
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
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