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This repository has been archived by the owner on May 3, 2024. It is now read-only.

Issues: Magdoll/cDNA_Cupcake

45 Open 168 Closed
45 Open 168 Closed
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Issues list

collapse_isoforms_by_sam.py out of memory
#250 opened Apr 29, 2024 by SY348
cdna_cupcake与SQANTI3
#249 opened Mar 20, 2024 by tky199996
Demultiplex after clustering / genome alignment
#248 opened Mar 7, 2024 by davidvilanova
fusion_finder.py
#247 opened Mar 3, 2024 by tky199996
1
Saturation analysis bug fixes; compatibility with newer isoseq cluster [make_file_for_subsampling_from_collapsed.py]
#244 opened Oct 12, 2023 by mrendleman
solved
#242 opened Sep 22, 2023 by gengbaobao
Cython compiler error when installing/building cDNA_cupcake
#241 opened Sep 14, 2023 by skchronicles
2
TypeError: iter_gmap_sam() got an unexpected keyword argument 'type' using collapse_isoforms_by_sam.py
#236 opened Jan 17, 2023 by gyorkeia
fusion_collate_info.py script has bugs and its not working.
#235 opened Nov 15, 2022 by unique379r
lima for skera.bam
#234 opened Nov 8, 2022 by hmyh1202
Create sam format for collapse_isoforms_by_sam.py
#232 opened Oct 3, 2022 by rodrisenovilla
cupcake2 directory missing, compilation fails
#231 opened Sep 1, 2022 by dvargaslandin
4
chain_samples.py does not work!
#230 opened Jul 19, 2022 by unique379r
Question: where does the count.txt file come from?
#228 opened May 29, 2022 by mad-scientist-in-training
Struggling in identifying the true positive fusion transcripts outputting from fusion_finder.py
#227 opened May 24, 2022 by wzhang42
How to configure the correct /optimal parameter and validate the true positive from PB fusion candidate list.
#226 opened May 21, 2022 by wzhang42
demux_isoseq_with_genome.py Issue - expecting input not generated by get_abundance_post_collapse.py
#223 opened May 19, 2022 by KrRi4
pkg_resources.ResolutionError when running "collapse_isoforms_by_sam.py"
#220 opened May 10, 2022 by ssaif-cellarity
2
Error about demux_isoseq_with_genome.py
#219 opened May 7, 2022 by Yuzhang0102
collapse with some data was very slow
#209 opened Apr 29, 2022 by shizhuoxing
1
collapse_isoforms_by_sam.py - can not iterate over samfile without header
#199 opened Mar 4, 2022 by ckitsoulis
2
Calling variants using IsoPhase from Iso-Seq data
#198 opened Feb 28, 2022 by Yexin-Zhang
1
Don't merge sample by chain_samples.py
#195 opened Feb 13, 2022 by 2209983424
Is there a hard limit on inter-exonic ranges?
#194 opened Feb 10, 2022 by markb729
1
chain_samples.py Exception: Sanity check failed!
#192 opened Feb 7, 2022 by tabeariepe
ProTip! Adding no:label will show everything without a label.