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PeteHaitch
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methtuple
methtuple is a methylation caller for methylation events that co-occur on the same DNA fragment from high-throughput bisulfite sequencing data, such as methylC-seq.
MIT License
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Error message
#104
weishwu
closed
2 years ago
11
Fix issue #102
#103
PeteHaitch
closed
2 years ago
0
nonCG, single context reporting
#102
amvondras
closed
2 years ago
5
Parsing SAM rather than BAM
#101
PeteHaitch
closed
8 years ago
0
Broken with pysam v0.8.4
#100
PeteHaitch
closed
8 years ago
7
Relevant changes in Bismark v0.14.4
#99
PeteHaitch
opened
9 years ago
1
Tests failing under pysam v0.8.3
#98
PeteHaitch
closed
9 years ago
0
Improve check that paired-end BAM is sorted by queryname
#97
PeteHaitch
closed
8 years ago
4
Support coveralls.io
#96
PeteHaitch
closed
9 years ago
0
Upgrade to pysam v0.8.2
#95
PeteHaitch
closed
9 years ago
0
Update to pysam 0.8.1
#94
PeteHaitch
closed
9 years ago
2
Using iterators
#93
PeteHaitch
closed
8 years ago
1
Add ac to filename of tsp files created with —all-combinations.
#92
PeteHaitch
closed
10 years ago
0
All pairs
#91
PeteHaitch
closed
10 years ago
0
Processing soft-clipped reads
#90
PeteHaitch
opened
10 years ago
1
Indel support
#89
PeteHaitch
closed
10 years ago
0
Better handling of multiple methylation types
#88
PeteHaitch
closed
8 years ago
1
Supporting other aligners
#87
PeteHaitch
closed
8 years ago
3
Option to create maximal m-tuple per read
#86
PeteHaitch
closed
8 years ago
1
Option to create all possible m-tuples
#85
PeteHaitch
closed
10 years ago
1
Note regarding --of Bismark
#84
PeteHaitch
closed
10 years ago
0
Check default EOL character in .tsv files.
#83
PeteHaitch
closed
10 years ago
1
Improve README
#82
PeteHaitch
closed
10 years ago
1
Add strand
#81
PeteHaitch
closed
10 years ago
0
Include strand in output?
#80
PeteHaitch
closed
10 years ago
1
Set default ir1p or ir2p
#79
PeteHaitch
closed
10 years ago
2
More options for run_comethylation.sh
#78
PeteHaitch
closed
10 years ago
1
Ignore by seq cycle
#77
PeteHaitch
closed
10 years ago
0
Add native parallel support to comethylation
#76
PeteHaitch
closed
10 years ago
1
Python3 support
#75
PeteHaitch
closed
10 years ago
8
Simplify command line arguments
#74
PeteHaitch
closed
10 years ago
0
Supporting aligners besides Bismark
#73
PeteHaitch
closed
10 years ago
1
Is CHG methylation strand-symmetric?
#72
PeteHaitch
closed
10 years ago
1
More general filtering by cycle
#71
PeteHaitch
closed
10 years ago
1
Benchmarking
#70
PeteHaitch
opened
10 years ago
4
Add option to gzip output
#69
PeteHaitch
closed
10 years ago
1
Use GNU parallel in helper script
#68
PeteHaitch
closed
10 years ago
1
Add to PyPI
#67
PeteHaitch
closed
9 years ago
2
Acknowledgements
#66
PeteHaitch
closed
10 years ago
0
Update examples using newest version of bismark
#65
PeteHaitch
closed
10 years ago
4
Improve memory usage
#64
PeteHaitch
closed
10 years ago
5
python setup.py test has exit status 1
#63
PeteHaitch
closed
10 years ago
2
Handle PBAT libraries
#62
PeteHaitch
closed
10 years ago
1
Handle non-directional protocols
#61
PeteHaitch
closed
10 years ago
0
Make a strand/orientation checking function
#60
PeteHaitch
closed
10 years ago
0
Remove unused files for initial public release
#59
PeteHaitch
closed
10 years ago
0
Changing name from Comethylation to comethylation
#58
PeteHaitch
closed
10 years ago
1
Test whether read contains complicated cigar and skip read if it does
#57
PeteHaitch
closed
10 years ago
0
Add Travis CI integration
#56
PeteHaitch
closed
10 years ago
0
Reinstated tests folder on add_tests branch
#55
PeteHaitch
closed
10 years ago
0
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