Skip to content

Issues: ablab/IsoQuant

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

30 Open 159 Closed
30 Open 159 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

inconsistency between transcript_tpm.tsv and transcript_model_tpm.tsv
#248 opened Sep 30, 2024 by Mangosteen24
2
input illumina bam
#247 opened Sep 27, 2024 by JhinJhinJhin
1
Tweaking minimap2 parameters in Isoquant question Further information is requested
#246 opened Sep 27, 2024 by sanyalab
1
Issues in KeyError: 'novel' duplicate This issue or pull request already exists
#245 opened Sep 25, 2024 by kerrwelton
4
Repeating error mesage: [W::hts_idx_load3] The index file is older than the data file: input data Issue is caused by input data question Further information is requested
#244 opened Sep 23, 2024 by zli-lilly
10
Understanding how inconsistent reads are reused for de novo discovery question Further information is requested
#243 opened Sep 22, 2024 by omarelgarwany
3
Visualize.py with linear output enhancement New feature or request
#241 opened Sep 20, 2024 by ljwharbers
1
GFF3 cannot be recognized bug Something isn't working enhancement New feature or request fixed in release Issue resolved and the fix is released, waiting for approval input data Issue is caused by input data
#240 opened Sep 20, 2024 by sanyalab
4
BrokenProcessPool Error when Running IsoQuant with Custom GTF
#238 opened Sep 10, 2024 by lebronzhong
1
Single cell data one library with different conditions question Further information is requested
#234 opened Sep 4, 2024 by vasikara17
2
Ambiguous Novel Transcript Locations and Merging Transcript Models question Further information is requested
#233 opened Sep 4, 2024 by BenneyMRArgue
2
I was able to run smoothly after setting the parameter 'ulimit -n 1000000', thanks! duplicate This issue or pull request already exists third-party problem Problem is related to other tools, libraries, system etc
#232 opened Sep 3, 2024 by lmulroney
3
How to handling Transcripts without strand information in IsoQuant GTF File duplicate This issue or pull request already exists fixed in release Issue resolved and the fix is released, waiting for approval
#231 opened Sep 2, 2024 by bxZhang996
3
No CDS in the novel genes predicted by Isoquant question Further information is requested
#230 opened Aug 29, 2024 by sqwwww
1
How to Process or Filter the Merged GTF File After Using Isoquant question Further information is requested
#228 opened Aug 27, 2024 by lebronzhong
3
How do I specify FLNC reads in IsoQuant question Further information is requested
#226 opened Aug 19, 2024 by sanyalab
4
Transcript quantification results are inconsistent question Further information is requested
#225 opened Aug 14, 2024 by biochristmas
3
issuesTraceback (most recent call last): File "/lustre/home/jianghao/mambaforge/envs/isoquant/bin/isoquant.py", line 808, in <module> main(sys.argv[1:]) third-party problem Problem is related to other tools, libraries, system etc
#221 opened Aug 2, 2024 by JhinJhinJhin
7
A Novel transcript without high-confidence reads support weird results Something looks odd in the resulting files
#207 opened Jun 27, 2024 by yuyun-zhang
2
Under the Reference-base model, TSS and TTS are not accurately annotated. weird results Something looks odd in the resulting files
#203 opened Jun 14, 2024 by zpliu1126
3
An inaccurate annotation weird results Something looks odd in the resulting files
#200 opened Jun 13, 2024 by zpliu1126
3
The issue of matching between the expanded GTF and transcript types
#194 opened May 27, 2024 by biochristmas
2
Add sample label to read_assignments.tsv/transcript_model_reads.tsv based on --labels? enhancement New feature or request
#192 opened May 21, 2024 by yangao07
1
isoquant terminated abruptly during multi-sample input
#191 opened May 20, 2024 by dongdongdong0203
2
gene_id attribute value cannot be found enhancement New feature or request fixed in release Issue resolved and the fix is released, waiting for approval input data Issue is caused by input data
#190 opened May 17, 2024 by sqwwww
3
ProTip! Type g p on any issue or pull request to go back to the pull request listing page.