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cnobles
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iGUIDE
Bioinformatic pipeline for identifying dsDNA breaks by marker based incorporation, such as breaks induced by designer nucleases like Cas9.
https://iguide.readthedocs.io/en/latest/
GNU General Public License v3.0
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What does "pooling" mean?
#85
iamjli-arsenal
closed
9 months ago
2
Memory explosion
#84
ShanSabri
closed
3 years ago
1
Job execution fails at iguide_evaluation rule because no reads in incorp_sites.rds?
#83
ShanSabri
closed
3 years ago
7
Pipeline fails using multihits (typo in code)
#82
ShanSabri
opened
3 years ago
1
Read enrichment at chromosome centromere
#81
ShanSabri
closed
3 years ago
10
running iguide with mouse datasets: Error in if (grepl(".rds$", ref$file)) { : argument is of length zero
#80
weihongqi
opened
3 years ago
2
Pipeline exceeds memory specifications and fails
#79
ShanSabri
closed
3 years ago
3
Failure at iguide_evaluation: NAs in widths (99% complete)
#78
ShanSabri
closed
3 years ago
1
evaluate error caused by sample and config file. Solved.
#77
weihongqi
closed
3 years ago
0
align errors
#76
magic2077
closed
3 years ago
3
a problem in running a job
#75
liliang0908
closed
3 years ago
3
A failure in the middle of the run
#74
iditbuch
closed
3 years ago
12
Add a check for git in install and tests
#73
gilfreund
opened
4 years ago
1
Error in Installing iGUIDE library
#72
gilfreund
opened
4 years ago
8
Document Updates
#71
cnobles
opened
4 years ago
0
Issues creating and detecting the the iguide environment
#70
pmendez00
opened
4 years ago
12
Update 1.1.0
#69
cnobles
closed
4 years ago
0
UMItags set to false fails pipeline workflow
#68
cnobles
closed
4 years ago
1
Update to fix bug for UMItags set to FALSE.
#67
cnobles
closed
4 years ago
0
Update to fisher's exact test for gene enrichment during evaluation.
#66
cnobles
closed
4 years ago
0
Negative values in genes of interest Fishers test
#65
helixscript
closed
4 years ago
1
Alternative UMI prep and analysis
#64
JoeEmendo
closed
4 years ago
11
SuppInfo files with sampleNames rather than specimen names fail.
#63
cnobles
opened
5 years ago
0
Implement Version Control on IncorpData
#62
cnobles
closed
4 years ago
0
Add versioning into assimilated data objects.
#61
cnobles
closed
5 years ago
1
SAM-output based aligners
#60
cnobles
closed
5 years ago
0
Rule review
#59
cnobles
closed
5 years ago
0
Rule review
#58
cnobles
closed
5 years ago
1
Absolute paths for sampleInfo and supp info can break rules
#57
cnobles
closed
5 years ago
1
iGUIDE R-based support functions moved to R-package
#56
cnobles
closed
5 years ago
0
Develop R-package from iguide_support.R
#55
cnobles
closed
5 years ago
1
Implement system for alternative aligners
#54
cnobles
closed
5 years ago
1
Update to importing csv/tsv sample info files.
#53
cnobles
closed
5 years ago
0
Stat report
#52
cnobles
closed
5 years ago
0
Setup skip demux
#51
cnobles
closed
5 years ago
0
Demux pattern
#50
cnobles
closed
5 years ago
0
Additional umitag mods
#49
cnobles
closed
5 years ago
0
Quoted CSV files crash import_sample_info
#48
ressy
closed
5 years ago
2
Optional UMItags
#47
ressy
closed
5 years ago
2
generate_stat_report tries to parse iguide_dir from other arguments
#46
ressy
closed
5 years ago
2
Argument list too long error in core_stat_matrix command
#45
ressy
closed
5 years ago
3
Allow readNamePattern via config for demulti and filt rules
#44
ressy
closed
5 years ago
2
Processing fails for SRA read IDs
#43
ressy
closed
5 years ago
1
UMItags output needed by core_stat_matrix rule
#42
ressy
closed
5 years ago
1
Fixes for --skip_demultiplexing in setup
#41
ressy
closed
5 years ago
2
Demultiplexing skip during setup fails
#40
ressy
closed
5 years ago
1
Update v0.9.9
#39
cnobles
closed
5 years ago
0
High memory requirement for issue
#38
cnobles
closed
5 years ago
1
Updates to example analysis in README
#37
ressy
closed
5 years ago
1
Update v0.9.8
#36
cnobles
closed
5 years ago
0
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