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jpiper
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pyDNase
Python module for the easy handling and analysis of DNase-seq data
http://jpiper.github.io/pyDNase
MIT License
37
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24
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Malformed BED line
#48
Zefeng-Wu
closed
4 years ago
0
Question about dnase_bias_estimator.py
#47
leinmeng
opened
4 years ago
0
matplotlib version
#46
glucksfall
opened
4 years ago
0
Why the wellington score is negative when I ran wellington_footprint with ATAC-seq data?
#45
tzhu-bio
opened
5 years ago
0
bol
#44
Salvacasani
opened
5 years ago
1
Empty bed file after running wellington_footprints.py
#43
hiroyukikato911
opened
5 years ago
2
Question about shifting alignment
#42
Wanvdphelys
opened
5 years ago
0
Support for unstranded bed lines
#41
akmorrow13
opened
5 years ago
0
wellington_footprints syntax error
#40
rsisaac
opened
6 years ago
0
Fix silent TypeError in wellington bootstrap
#39
brisk022
closed
5 years ago
4
Migrate docs
#38
jpiper
opened
6 years ago
0
wellington_bootstrap.py finishes with empty files
#37
KRSBar
opened
6 years ago
3
Error in wellington_footprints.py when reading bed file
#36
KRSBar
closed
6 years ago
4
Fix #28, #31 and related issues
#35
dpryan79
closed
6 years ago
2
Please tag 0.2.6 on github
#34
dpryan79
closed
6 years ago
1
Fix some compiler warnings and test logic
#33
dpryan79
closed
6 years ago
7
example_footprint_scores.py
#32
SaideepGona
closed
6 years ago
7
dnase_wig_tracks.py crushes - python3
#31
mcjmigdal
closed
6 years ago
2
updated wellington_footprints.py
#30
billgreenwald
closed
6 years ago
4
wellington footprints never finishes
#29
billgreenwald
opened
6 years ago
2
error in wellington_footprints.py
#28
billgreenwald
closed
6 years ago
5
Allow footprinting from bias-corrected data.
#27
jpiper
opened
6 years ago
0
0.2.6 updates
#26
jpiper
closed
6 years ago
3
Python version issues(?) running wellington_footprints.py
#25
Xparx
closed
6 years ago
7
For ATAC-seq bias correction, is an naked DNA sequencing data necessary?
#24
Honchkrow
closed
5 years ago
2
IndexError using wellington_footprints.py with Python 2.7.14
#23
jma1991
closed
6 years ago
1
Python 3 regression in `wellington_footprints.py`
#22
jpiper
closed
6 years ago
0
Change license to something more permissing
#21
jpiper
closed
6 years ago
1
Update URI for get-pip.py script
#20
jshoyer
closed
7 years ago
2
ATAC-seq handling question
#19
hiranumn
closed
7 years ago
2
wellington_footprints.py doesn't work with python3
#18
bheavner
closed
6 years ago
1
Misc fixes
#17
jpiper
closed
8 years ago
8
alignedread.aend is None sometimes and wellington_footprints.py crashes
#16
JohnReid
closed
8 years ago
2
fix a small code type
#15
sirusb
closed
8 years ago
2
wellington_bootstrap questions
#14
jean997
opened
8 years ago
3
instructions for disabling -fdrlimit with Wellinton are contradictory, don't agree with source code
#13
bheavner
closed
8 years ago
4
dnase_bias_estimator.py argument names
#12
hughes-drew
closed
8 years ago
1
Problem of BAMHandler and FOS
#11
blacktanktop
closed
8 years ago
2
Finding footprints (wellington_footprints.py)
#10
blacktanktop
closed
9 years ago
1
Fixing a syntax error in bedtools invocation
#9
ajank
closed
10 years ago
2
Bad bam file?
#8
kerrybubb
closed
10 years ago
6
Fix pvalue cutoffs in wellington_footprints.py
#7
jpiper
closed
6 years ago
0
Rebase develop branch
#6
jpiper
closed
10 years ago
0
No README.rst, generates install error
#5
dankoc
closed
10 years ago
1
Refactor footprinting module
#4
jpiper
opened
10 years ago
0
numpy package requirements
#3
jnyhuis
closed
10 years ago
4
Better test coverage
#2
jpiper
opened
10 years ago
0
pyDNase not compatible with Python 2.6.6
#1
akjohnson
closed
10 years ago
1