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jonassibbesen
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rpvg
Method for inferring path posterior probabilities and abundances from pangenome graph read alignments
MIT License
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Question about usage of rpvg command
#62
CarlosAmadeo7
opened
1 week ago
3
rpvg stuck for two days
#61
Jokendo-collab
closed
3 months ago
0
mapping reads to pan-transcriptom too slow
#60
jkfo002
closed
5 months ago
2
HST assignment : rpvg assigned two different homo HST instead of expected heterozygous transcripts.
#59
jjuhyunkim
opened
9 months ago
0
Error : void NestedPathAbundanceEstimator::inferPathSubsetAbundance
#58
jjuhyunkim
closed
9 months ago
2
Haplotype probability and read count
#57
agolicz
opened
10 months ago
2
Haplotype transcript length inconsistent with GTF
#56
dongdongdong0203
closed
11 months ago
3
Meaning of input and output files of pantranscriptome
#55
dongdongdong0203
closed
11 months ago
5
Can't run rpvg successfully
#54
Tonitsk8264
closed
10 months ago
5
Unable to run rpvg analyses without error
#53
JoshLangman
opened
1 year ago
2
'std::bad_alloc' error in rpvg
#52
xuxingyubio
closed
1 year ago
3
Fix infinite loop in fragment length distribution estimation
#51
jeizenga
closed
1 year ago
0
Too much time consumed in quantification
#50
LiuShang-777
closed
1 year ago
8
Problems on pan-transcriptome index
#49
LiuShang-777
closed
1 year ago
3
Failed to read BGZF block data at offset 4088217654 expected 4336 bytes; hread returned 1914
#48
abcyulongwang
opened
1 year ago
2
Add static build option
#47
jonassibbesen
closed
1 year ago
0
Unable to obtain GWBT
#46
ld9866
closed
1 year ago
13
How to prepare the gtf?
#45
ld9866
closed
1 year ago
7
Could not install the rpvg in Linux
#44
ld9866
closed
1 year ago
2
Assertion `hasNodeId(node_id)' failed
#43
wtulle
opened
1 year ago
20
make static version?
#42
LouisPwr
opened
1 year ago
2
Update Catch2 to newer version
#41
jonassibbesen
closed
1 year ago
0
build rpvg failed
#40
hailingfang
closed
1 year ago
1
Updated dependencies
#39
jonassibbesen
closed
1 year ago
0
Model for rpvg's output
#38
lsoldini
closed
1 year ago
40
Software for differential expression analysis from rpvg's readcount
#37
lsoldini
closed
2 years ago
3
Add marginal transcript abundance inference
#36
jonassibbesen
closed
2 years ago
0
gtf error
#35
zxc1359
opened
2 years ago
1
Crash: Assertion `best_align_score <= optimal_score' failed
#34
lsoldini
closed
2 years ago
4
Errors while running rpvg
#33
prenderj
closed
2 years ago
8
About the compilation and installation of rpvg software
#32
GeorgeBGM
closed
2 years ago
24
Update gbwt submodule version
#31
jonassibbesen
closed
2 years ago
0
Fix parsing of new path info format
#30
jonassibbesen
closed
2 years ago
0
Added noise to inference and output
#29
jonassibbesen
closed
2 years ago
0
Fix gam intron parsing issue
#28
jonassibbesen
closed
2 years ago
0
Added non-quality score and max fragment length options
#27
jonassibbesen
closed
2 years ago
0
Add joint haplotype-specific expression output
#26
jonassibbesen
closed
2 years ago
0
Optimized the haplotyping step, and added support for allelic mapping qualities and gzipped transcript info files
#25
jonassibbesen
closed
2 years ago
0
Fix numerical issues in skew normal fitting
#24
jeizenga
closed
2 years ago
0
Add skew-normal option for fragment length distribution
#23
jeizenga
closed
2 years ago
0
Added example dataset
#22
jonassibbesen
closed
3 years ago
0
Added maximum score difference threshold to options
#21
jonassibbesen
closed
3 years ago
0
Added haplotyping output to haplotype-transcripts inference mode
#20
jonassibbesen
closed
3 years ago
0
Improve convergence criteria for lowly expressed transcripts
#19
jonassibbesen
closed
3 years ago
0
Haplotype probability bug fix and changes to noise usage in expression estimation
#18
jonassibbesen
closed
3 years ago
0
Added support for r-index, partial matching and improved the noise estimates (first release).
#17
jonassibbesen
closed
3 years ago
0
Added option to enforce that haplotype estimates are equivalent for transcripts in the same cluster
#16
jonassibbesen
closed
3 years ago
0
Abundance Gibbs sampling bug fix
#15
jonassibbesen
closed
3 years ago
0
Read count bug fix in Gibbs sample output
#14
jonassibbesen
closed
3 years ago
0
Major update (support for strand-specific sequencing and abundance uncertainty sampling)
#13
jonassibbesen
closed
3 years ago
0
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