mortazavilab/swan_vis issues and pull requests

#30 - Speeding up Exon skipping and intron retention on HPC

Issue - State: open - Opened by rugilemat 8 months ago

#29 - sg.add_adata(adata_file) not working

Issue - State: closed - Opened by wdg118 9 months ago - 5 comments

#28 - olgabot/colorize browser path

Pull Request - State: closed - Opened by olgabot 9 months ago - 2 comments

#27 - Index contains duplicate entries, cannot reshape

Issue - State: closed - Opened by rugilemat 10 months ago - 4 comments

#26 - Adding transcriptome in a TALON-independent way?

Issue - State: open - Opened by lscdanson 11 months ago - 3 comments

#25 - Correctly parse GTF files with semicolons and spaces in free-form column values.

Pull Request - State: closed - Opened by kreldjarn 12 months ago

#24 - Switch diffexp to pydeseq2 for differential gene and transcript expression testing

Issue - State: open - Opened by fairliereese over 1 year ago - 1 comment

#23 - MemoryError: Unable to allocate 113. GiB for an array with shape (9992, 3033596) and data type float32

Issue - State: closed - Opened by catsargent almost 2 years ago - 5 comments

#22 - Example code problem

Issue - State: closed - Opened by liuxiawei about 2 years ago - 1 comment

#21 - find_es_genes returns duplicated entries

Issue - State: open - Opened by fairliereese over 2 years ago
Labels: bug

#20 - Differential isoform usage multiple conditions

Issue - State: open - Opened by rsalz over 2 years ago - 1 comment

#19 - Issues differential expression

Issue - State: closed - Opened by rsalz over 2 years ago - 3 comments
Labels: enhancement

#18 - relation between splicing in/out sites and exons

Issue - State: closed - Opened by xiaonalu about 3 years ago - 5 comments

#17 - plot a transcript with all transcripts as background

Issue - State: closed - Opened by xiaonalu about 3 years ago - 8 comments

#16 - replace talon.db

Issue - State: closed - Opened by xiaonalu about 3 years ago - 10 comments

#15 - AttributeError: 'SwanGraph' object has no attribute 'ass_transcriptome'

Issue - State: closed - Opened by xiaonalu about 3 years ago - 2 comments

#14 - Missing transcripts

Issue - State: closed - Opened by rsalz about 3 years ago - 3 comments

#13 - Development

Pull Request - State: closed - Opened by fairliereese over 3 years ago

#12 - Development

Pull Request - State: closed - Opened by fairliereese over 3 years ago

#11 - Intron retention and exon skipping analysis

Issue - State: closed - Opened by rsalz over 3 years ago - 22 comments
Labels: enhancement

#10 - swanvis broken?

Issue - State: closed - Opened by rsalz over 3 years ago - 3 comments

#9 - Novelty info not found

Issue - State: closed - Opened by SziKayLeung over 3 years ago - 3 comments

#8 - Missing case for plottedgraph init

Issue - State: closed - Opened by fairliereese over 3 years ago - 2 comments

#7 - Ir es change

Pull Request - State: closed - Opened by fairliereese over 4 years ago

#6 - ES IR error

Issue - State: closed - Opened by ashokpatowary over 4 years ago - 10 comments

#5 - ValueError