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39 Open 163 Closed
39 Open 163 Closed
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Issues list

bgzipped ref fasta take much longer time performance Issues related to computational perfromance third-party problem Problem is related to other tools, libraries, system etc
#260 opened Nov 12, 2024 by baozg
1
adding extra parameters for minimap2 enhancement New feature or request
#259 opened Nov 7, 2024 by baozg
1
Is it necessary to de-redundant the resulting transcript model? question Further information is requested
#257 opened Nov 6, 2024 by wjcre2023
7
Handling BAM files with polyA trimmed question Further information is requested
#256 opened Nov 5, 2024 by omarelgarwany
1
antisense classification for ONT direct RNAseq data algorithm Issue requires algorithmic improvement enhancement New feature or request question Further information is requested
#255 opened Nov 4, 2024 by baishengjun
1
Exon counts when there are genes on both strands algorithm Issue requires algorithmic improvement enhancement New feature or request
#253 opened Oct 22, 2024 by skagawa2
@andrewprzh
2
how does isoquant deal with same cellular barcode across replicate files? question Further information is requested
#252 opened Oct 10, 2024 by sparthib
1
Specify cutoff for number of reads or number of samples. question Further information is requested
#251 opened Oct 9, 2024 by liuzhenyu-yyy
1
Inconsistent read assignment with bam file
#250 opened Oct 9, 2024 by airichli
2
inconsistency between transcript_tpm.tsv and transcript_model_tpm.tsv performance Issues related to computational perfromance
#248 opened Sep 30, 2024 by Mangosteen24
7
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
4
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
6
ProTip! Adding no:label will show everything without a label.