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Issues list

Per-read support? enhancement New feature or request
#17 by PanZiwei was closed Jun 7, 2023
8
Probability threshold too aggressive
#3 by faulk-lab was closed Apr 18, 2023
5
Error code: Error! didn't sample enough data, try a larger fraction of another seed
#4 by kaufmanelij was closed Apr 24, 2023
8
Q: compared to modbam2bed?
#5 by sklages was closed Apr 27, 2023
2
Q: --filter-threshold FRAC description
#6 by sklages was closed Apr 30, 2023
2
modkit settings for rerio flip-flop modified base models
#7 by Yijun-Tian was closed May 3, 2023
4
Options of 'summary'
#8 by qiangfu-eu was closed May 6, 2023
3
Option '--filter-threshold' of summary bug Something isn't working
#10 by qiangfu-eu was closed May 6, 2023
7
Log skipped and discarded reads, such as HardClip reads from minimap2 enhancement New feature or request logging Additional information should be logged
#11 by qiangfu-eu was closed Jun 6, 2023
4
Possible option to constrain summary only to the aligned bases?
#12 by qiangfu-eu was closed May 8, 2023
2
Setting dual thresholds with modkit
#13 by pwh124 was closed May 22, 2023
8
Failed modification calls
#15 by pwh124 was closed May 10, 2023
3
Any chance you could compile for earlier glibc?
#1 by mp15 was closed Apr 12, 2023
3
Output bed for every CpG position question Looking for clarification on inputs and/or outputs
#16 by billytcl was closed Jun 7, 2023
8
[ERROR] double added base mod calls for base C and read X,potentially a logic error! logging Additional information should be logged
#18 by billytcl was closed Feb 7, 2024
9
Mixed delimiter types in output bed file question Looking for clarification on inputs and/or outputs
#19 by billytcl was closed Jun 7, 2023
2
How does modkit handle secondary/supplementary alignments? question Looking for clarification on inputs and/or outputs
#20 by billytcl was closed May 26, 2023
3
Empty bed file documentation Improvements or additions to documentation
#21 by Violeta-de-Anca was closed May 31, 2023
5
About the output of modkit question Looking for clarification on inputs and/or outputs
#22 by Flower9618 was closed Jun 7, 2023
5
modkit: command not found
#23 by gsukrit was closed Dec 15, 2023
10
offset in motif-bed question Looking for clarification on inputs and/or outputs
#24 by Violeta-de-Anca was closed Jun 1, 2023
2
[call-mods] --no-filtering broken, use --filter-threshold 0.0 instead
#25 by ArtRand was closed Jun 2, 2023
differnt CpG sites when using different threads parameter
#27 by DarwishAl was closed Dec 15, 2023
4
error: unexpected argument '--collapse' found for modkit 0.1.8 documentation Improvements or additions to documentation
#28 by PanZiwei was closed Jun 21, 2023
1
DMR pair analysis - output .bed clarification
#223 by physnano was closed Jul 3, 2024
1
ProTip! no:milestone will show everything without a milestone.