macs3-project MACS issues

macs3-project / MACS

MACS -- Model-based Analysis of ChIP-Seq

https://macs3-project.github.io/MACS/

BSD 3-Clause "New" or "Revised" License

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issues

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Feat/macs3/reformat pyproject

#662 taoliu opened 2 hours ago
0
Q: does BAMPE format require a name-sorted BAM or coordinate-sorted bam or it does not matter?

#661 sotuamax closed 9 hours ago
2
Bug: Are requirements stated correctly?

#658 outpaddling closed 2 weeks ago
2
Doc/macs3/3.0.2 for v3.0.2 release

#657 taoliu closed 3 weeks ago
0
Q: What parameters should I need to tweak for viral ChipSeq

#656 Rohit-Satyam opened 1 month ago
1
Bug: Multiple errors trying to install MACS2 on a venv

#655 fionafitzz closed 1 month ago
1
Better cutoff levels control for bdgcallpeak cutoff-analysis

#654 callum-b opened 2 months ago
1
MACS3 callpeak does not create UCSC Browser ready peak files

#653 callum-b closed 3 weeks ago
1
Q: using macs3 to detect peaks on long-read readings

#652 MJoseMo opened 3 months ago
0
Feat: Add --call-summits option in MACS3 bdgpeakcall?

#651 alicewang19 opened 3 months ago
0
Number of de-duplicated reads indicated by filterdup log does not match number of lines in output BED file.

#650 callum-b opened 3 months ago
0
Bug: OverflowError when running hmmratac

#649 atj31 opened 3 months ago
0
Q: How to use HMMRATAC to give us a narrow peak file and have signalValue, p and q-value ?

#648 MinaMyr opened 3 months ago
1
Setting cut-off when using logFE bigWig files from bdgcmp

#646 manjumoorthy95 opened 4 months ago
0
Feat/macs3/narrowpeak

#645 taoliu closed 4 months ago
0
Q: impact of sequencing throughput on peak calling

#644 SplitInf closed 3 months ago
4
Bug: Callvar throws an error when run on broadPeak file

#643 LinearParadox opened 5 months ago
15
Documentation update and refine cutoff-analysis for `hmmratac`

#642 taoliu closed 4 months ago
0
[Feat/macs3/memory consumption] To address the memory usage issue of `hmmratac`

#640 taoliu closed 5 months ago
0
Q: how to use MACS3 for ATAC seq with "himmratac" option?

#639 kbarrr opened 5 months ago
2
Q: HMMRATAC reproducibility

#638 igordot opened 6 months ago
2
Bug: undefined symbol: __pow_finite

#637 jowodo opened 6 months ago
3
Q: HMMRATAC producing too many peaks

#636 igordot opened 6 months ago
10
Feat/macs3/hmm poisson

#635 philippadoherty closed 6 months ago
1
Feat: Built-in scoring for HMMRATAC

#634 mrendleman opened 7 months ago
1
Q: HMMRATAC output and options for _summit.bed

#633 kawairine opened 7 months ago
1
Use trusted publishing to upload package to pypi

#632 taoliu closed 7 months ago
0
Feat/macs3/hmmlearn0.3.2

#631 taoliu closed 7 months ago
0
use CC instead of gcc

#630 bgruening closed 7 months ago
2
Fix spelling typos found by lintian

#629 mr-c closed 7 months ago
1
Feat: Reduction of memory consumption

#628 diego-rt opened 7 months ago
3
Feat/macs3/unittest hmm

#627 taoliu closed 7 months ago
1
Feat: Enhanced clarification of the specific definition of BEDPE as used by MACS

#626 kalavattam opened 7 months ago
1
Feat/macs3/output vers libs ga

#625 taoliu closed 7 months ago
0
fix SyntaxWarning by marking a regex as such

#624 mr-c closed 7 months ago
1
explictly use Python version 3

#623 mr-c closed 7 months ago
1
Release/macs3/3.0.1

#622 taoliu closed 7 months ago
0
Q: conversion of output files to UCSC track hub format?

#621 maximilianh opened 7 months ago
1
patch hmmlearn, fix dependencies

#620 taoliu closed 7 months ago
0
v3.0.1: Add JI method to test similarity of outputs; Sphinx documentations; Dependencies adjustment

#619 taoliu closed 7 months ago
0
Doc/macs3/sphinx migration -> test_peak_overlap

#618 taoliu closed 7 months ago
0
What is the difference between "absolute peak summit" and "summit position" in narrowPeak format?

#617 mcsimenc opened 8 months ago
1
Bug: pip install error: subprocess-exited-with-error

#616 ferygood closed 8 months ago
2
Bug: test suite failure in MACS 3.0.0

#615 tillea closed 7 months ago
18
Q: Defining the bin size when generating bedgraphs.

#614 rikrdo89 opened 8 months ago
0
Q: Is there a way to specify blacklisted regions in MACS2?

#613 rikrdo89 opened 8 months ago
0
remove cython from setup.py requirements

#612 taoliu closed 8 months ago
0
fix labels for signals

#611 philippadoherty closed 8 months ago
1
Mention alternative installation methods in install guide

#610 outpaddling opened 8 months ago
0
Bug: Test scripts failing

#609 outpaddling closed 8 months ago
1