Xinglab rmats-turbo issues

Xinglab / rmats-turbo

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uniformative error reading GTF

#414 rLannes closed 1 day ago
2
rMATS long runtime

#413 kairitanaka closed 3 days ago
2
the sequencing library is vague

#412 xiaobearxiaobear opened 1 week ago
1
the chr column is not normal

#411 xiaobearxiaobear closed 1 week ago
2
"IJC_SAMPLE_1 SJC_SAMPLE_1 IJC_SAMPLE_2 SJC_SAMPLE_2" in the EVENT.MATS.JCEC.txt file is 0, while the value of the five columns "PValue FDR IncLevel1 IncLevel2 IncLevelDifference" five columns have a value of NA.

#410 xiaobearxiaobear closed 1 week ago
4
Error while running rmats.py

#409 NupurDubeyy opened 2 weeks ago
26
The new version of PAIRADISE is not compatible with the current pair script

#408 Apey-SJ opened 2 weeks ago
1
No intron retention detected in a manually made genome and annotation file

#407 circR opened 3 weeks ago
3
install rmats turbo

#406 adi8897 closed 3 weeks ago
0
Bioconda install v4.3.0- multiple errors

#405 camcorey closed 4 weeks ago
2
A3SS and A5SS

#404 adeslatt opened 1 month ago
1
unrecognized arguments: --darts-model

#403 Yuqiu-Yang closed 1 month ago
2
rMATS skipping 2 exons that are expressed

#402 mlcsmits closed 1 month ago
4
SE events in output table do not match to the GTF annotation

#401 CyberGypsy6324 closed 1 day ago
5
Few questions regarding rMATS

#400 tanya-lasagne opened 1 month ago
5
Discrepancy Between rMATS-turbo Results and IGV Visualization

#399 rezarahman12 opened 2 months ago
3
Comparison of multiple groups in rMATS

#398 mamarkevi opened 2 months ago
4
UnicodeDecodeError: 'ascii' codec can't decode byte 0x8b in position 1: ordinal not in range(128)

#397 kerendanan1511 opened 2 months ago
1
zero mapped rates uisng rmats

#396 wangduo-ux opened 2 months ago
3
Does rmats-turbo work on mac OS？

#395 linyibin123 opened 2 months ago
3
What is the basic principle behind rmats detection of individual events?

#394 happypiggyzjx opened 2 months ago
3
ValueError: invalid literal for int() with base 10

#393 RaghdaKailany closed 2 months ago
1
readLength warning

#392 nbizzozero opened 2 months ago
5
Why the `summary.txt` is empty?

#391 danli349 opened 2 months ago
11
`import rmatspipeline`: ImportError: rmats_turbo_v4_3_0/rmatspipeline.cpython-310-x86_64-linux-gnu.so: undefined symbol: _ZNK8BamTools12BamAlignment10GetTagTypeERKSsRc

#390 danli349 opened 3 months ago
4
libRlapack.so: cannot open shared object file: No such file or directory

#389 danli349 opened 3 months ago
2
Error in readRDS(file) : cannot read workspace version 3 written by R 4.0.5; need R 3.5.0 or newer

#388 danli349 closed 3 months ago
2
Not detectable

#387 tebioinformatics opened 3 months ago
3
Update to version 4.3.0

#386 EricKutschera closed 3 months ago
0
Add more R packages to Dockerfile

#385 EricKutschera closed 3 months ago
0
Can't find 'rmatspipeline' to import 'run_pipe'

#384 tanya-lasagne opened 3 months ago
8
Update README

#383 EricKutschera closed 3 months ago
0
What GTF file should I be using for mapped BAM files?

#382 tanya-lasagne opened 3 months ago
1
Check for individualCounts files in apply_id_mapping

#381 EricKutschera closed 3 months ago
0
Check for missing values when counting reads

#380 EricKutschera closed 3 months ago
0
Print more info if a bam file cannot be opened

#379 EricKutschera closed 3 months ago
0
Extracting sequence from the output of rMATS

#378 arafmahmud opened 3 months ago
2
Add option to run DARTS model

#377 EricKutschera closed 3 months ago
0
The value of the four columns "IJC_SAMPLE_1 SJC_SAMPLE_1 IJC_SAMPLE_2 SJC_SAMPLE_2" in the EVENT.MATS.JCEC.txt file is 0, while the value of the five columns "PValue FDR IncLevel1 IncLevel2 IncLevelDifference" five columns have a value of NA.

#376 happypiggyzjx opened 3 months ago
2
no files had been generated in prep and post

#375 suiyue7 closed 3 months ago
2
JCEC and JC in "summary.txt"

#374 luojinqin opened 3 months ago
1
Set MXE effective lengths based on strand for fixed event set

#373 EricKutschera closed 3 months ago
0
All output files have only headers

#372 happypiggyzjx opened 3 months ago
6
Is it reasonable to convert post-processed files to GTF for rmats?

#371 liuxiawei closed 3 months ago
2
Failed to open BAM files, all results files are emtpy, changed to --outSAMtype BAM Unsorted

#370 kerendanan1511 closed 3 months ago
2
Error running rMATS in ubuntu with conda

#369 mlcsmits closed 3 months ago
4
Can rmats analyze alternative first exon?

#368 xsong8823 opened 4 months ago
1
Dont understand output of "read_outcomes_by_bam.txt" or "summary.txt"

#367 theokirkland opened 4 months ago
2
drastic difference in output 4.1.2 vs 4.0.2 (not -read-length related...?)

#366 ValentinV-GAD opened 4 months ago
3
cannot find rmatspipeline

#365 theokirkland opened 4 months ago
9