issues
search
gpertea
/
stringtie
Transcript assembly and quantification for RNA-Seq
MIT License
361
stars
76
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Recommendations for calling StringTie with RNA-seq data from small-genome organisms such as S. cerevisiae
#386
kalavattam
opened
1 year ago
0
bugfix: Allow updating -s
#385
kdm9
opened
1 year ago
0
Stringtie not identifying unannotated exon (annotated or de novo assembly)
#384
dmworstell
opened
1 year ago
1
A new transcript appears after stringtie2 --merge used
#383
Hubuyan
opened
1 year ago
0
One gene outputs multiple TPM values
#382
HengkuanLi
opened
1 year ago
3
Issue: could not locate transcript gene
#381
carlmed00
opened
1 year ago
1
StringTie gives incorrect 5 end.
#380
Pentayouth
opened
1 year ago
0
Coverage in output gif file
#379
AyushSemwal
opened
1 year ago
0
stringtie recognizes and converts CDS?
#378
choiseungji
opened
1 year ago
1
fix some building warning
#377
kkzhsh
opened
1 year ago
1
Stringtie skips pseudo genes from reference gtf
#376
m-waqas
opened
1 year ago
0
Stringtie skips some reference gene ids
#375
m-waqas
closed
1 year ago
0
gene/transcript abundance
#374
woshiyangsi
opened
1 year ago
0
Duplication of an exon is consider as an insertion
#373
Nedss
opened
1 year ago
0
How to retain genomic coordinates (chr, start, end, strand) of genes when going from StringTie to Ballgown or DESeq2?
#372
kainth-amoldeep
opened
2 years ago
0
fix #348 . Adds mutex to manage concurrent writing to covered referen…
#371
gsatas
closed
2 years ago
1
There is a case where the 5' side of Exon disappears in StringTie merge
#370
c2997108
opened
2 years ago
0
LongReads.fq is empty and superReadSequences.fasta looks like longreads
#368
Evenlyeven
opened
2 years ago
0
How do I run if I have Illumina, Nanopore AND PacBio data?
#367
niradsp
opened
2 years ago
0
Can stringtie count partially transcribed transcripts into gene counts?
#366
quwei00
opened
2 years ago
0
FPKM filter in stringtie --merge
#365
pasviber
opened
2 years ago
0
Overlapped gene ids in the gene abundance tab file
#363
dahun73
closed
2 years ago
0
Please consider making dependencies able to be dynamically linked
#362
SethosII
opened
2 years ago
2
Error: no valid ID found for GFF record
#361
zuodabin
opened
2 years ago
2
prepDE.py error: sample file not generated by -e option
#360
zjj19910
closed
2 years ago
2
Segmentation Fault when merge scallop2 gtfs
#359
xiekunwhy
opened
2 years ago
1
--mix with -e loses guide transcripts
#358
gpertea
opened
2 years ago
1
duplicate transcript output with -L -e
#357
AmrSaadeldin
opened
2 years ago
5
segmentation fault with long read data [ stringtie v2.2.1 ]
#356
zhixue
closed
2 years ago
7
error:discarding overlapping duplicate gene feature during assembly process
#355
ravisaroch
closed
2 years ago
0
Multiple transcripts with the same coordinates
#354
suyeonwy
opened
2 years ago
0
StringTie is unable to predict known transcripts.
#353
unique379r
opened
2 years ago
0
stringtie/2.0.3 ignoring reads
#352
zhezhenwang
opened
2 years ago
0
How to filter the merged transcripts
#351
Huangyizhong
opened
2 years ago
6
--merge disregards -G option?
#350
NoahHenrikKleinschmidt
closed
2 years ago
2
Expected ballgown output when not using '-e'
#349
gabepen
closed
2 years ago
3
Mangled new lines in coverage gtf file
#348
OXB-DC
closed
2 years ago
4
running with point feature file
#347
Amhaslam
closed
2 years ago
2
Can '--mix' option integrate CAGE data and Iso-seq?
#346
Jung19911124
opened
2 years ago
0
Malformed t_data.ctab file
#345
adc0032
closed
2 years ago
0
Gene id duplication caused by prepDE3.py
#344
jgreen51515
opened
2 years ago
0
Merge BAM files from biological replicates or not
#343
biozzq
closed
2 years ago
1
dictionary optimization
#342
yollct
closed
2 years ago
1
Suggestion for improving on annotation transcript start and end positions
#341
shernadi
opened
2 years ago
0
question about gene_abund.tab, the GENEID's number and order are not equal
#340
lielab
opened
2 years ago
0
How to integrate point-feature option in the standard workflow ?
#339
camelest
opened
2 years ago
1
invalid feature coordinates from long read 'collapsed' assembly
#338
noncodo
opened
2 years ago
3
prepDE.py error: could not locate transcript
#337
huangwb8
closed
2 years ago
5
Using the new --mix option for short and long-read data
#336
niradsp
opened
2 years ago
0
Merge option gives different transcript numbers depending upon how the GTFs are provides
#335
sanyalab
closed
2 years ago
2
Previous
Next