TheFraserLab ASEr issues - Githubissues

TheFraserLab / ASEr

Get ASE counts from BAMs or raw fastq data -- repackage of pipeline by Carlo Artieri

MIT License

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issues

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Incorporating quality scores for ASE counts

#18 rmagoglia opened 7 years ago
2
Reads dropped during ASE calling?

#17 rmagoglia opened 8 years ago
1
GFF/GTF format handling

#16 rmagoglia closed 8 years ago
0
Skipping of Indels in CountSNPASE

#15 petercombs opened 8 years ago
1
Make sure we throw out chimeric reads

#14 petercombs opened 8 years ago
0
Fetch over entire genes...

#13 carloartieri opened 8 years ago
0
[DUMMY] Add comments to bin/CountSNPASE.py

#12 carloartieri opened 8 years ago
1
Add py.test capability and move Makefile to tests

#11 MikeDacre closed 8 years ago
0
Autotest

#10 petercombs closed 8 years ago
1
Add some pandas and a major speed improvement

#9 petercombs opened 8 years ago
0
Add summary of algorithm to README.rst

#8 MikeDacre opened 8 years ago
0
Allow use of GFF/GTF/VCF files instead of bed files.

#7 MikeDacre opened 8 years ago
2
Refactor to function based code, improve cluster submission, fix minor bugs

#6 MikeDacre closed 8 years ago
0
Copied over script for making masked fasta

#5 petercombs closed 8 years ago
1
Change input/output tables to be handled by pandas

#4 MikeDacre opened 8 years ago
2
Make multiplexing library use python's multiprocessing

#3 MikeDacre closed 8 years ago
1
Alter code to use pysam's bam indexing to speed up parsing.

#2 MikeDacre opened 8 years ago
3
Switch code to pysam

#1 petercombs closed 8 years ago
0