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gpertea
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stringtie
Transcript assembly and quantification for RNA-Seq
MIT License
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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
3 years ago
1
invalid feature coordinates from long read 'collapsed' assembly
#338
noncodo
opened
3 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
3 years ago
0
Merge option gives different transcript numbers depending upon how the GTFs are provides
#335
sanyalab
closed
3 years ago
2
Must the GTF file used by stringtie be the same as the GTF file used by aligner?
#334
ZHIDIHUAYUAN
opened
3 years ago
0
Can stringtie add UTR to guided transcripts?
#333
krabapple
opened
3 years ago
3
How can Stringtie decide the strand of a transcript assembled by a standard RNA library?
#332
ZHIDIHUAYUAN
closed
3 years ago
3
Issue running prepDE.py
#331
G-Molano-LA
opened
3 years ago
0
-ptf option - recommended input & implementation details?
#330
SamBryce-Smith
opened
3 years ago
0
Questions concerning implementation of -i option
#329
tonyaseverson
opened
3 years ago
0
duplication of gene level data from prepde
#328
jcohn42
opened
3 years ago
1
segmentation fault with long read data [ stringtie v2.1.4 ]
#327
daniel-spies
closed
3 years ago
2
Unable to load stringtie in Linux
#326
kchen96
closed
3 years ago
1
Question about long reads splice sites correction
#325
youyupei
opened
3 years ago
0
Issues with -M parameter
#324
bvaldebenitom
opened
3 years ago
0
Question to StrigTie and the use of strand-specific data
#323
cc-prolix
opened
3 years ago
0
gtf assembled using stringtie has lines missing strand info
#322
linzhangTuesday
opened
3 years ago
1
How do you convert MSTRG.number to Gene name or Gene symbol?
#321
ghost
opened
3 years ago
2
GVec error
#320
RAWWiberg
closed
4 months ago
16
output files shorter than others
#319
gianfilippo
closed
3 years ago
4
GVec error: invalid index: 18
#318
gianfilippo
closed
3 years ago
4
AttributeError: 'NoneType' object has no attribute 'group'
#317
daniellembecker
closed
3 years ago
7
de-novo transcript assembly using genome-guided bam
#316
ARW-UBT
opened
3 years ago
1
STAR -> StringTie run giving very small number of novel exons/introns/loci (<1.0% of total)
#314
JenW1984
opened
3 years ago
2
Gene IDs after updated prepDE.py
#313
asumann
opened
3 years ago
1
What is the "-m" option doing
#312
ytcheung
opened
3 years ago
2
my sample consume a lot of memory
#311
tlz4320
opened
3 years ago
1
Stringtie stopped writing to tmp folder
#310
wenweixiong
opened
3 years ago
2
Negative coverage values (version 2.1.3b)
#309
junghoon-shin
opened
3 years ago
0
Error at GBitVec: index 31 out of bounds (size 8) during stringtie --merge
#308
mirahan
opened
3 years ago
0
long read + RNAseq
#307
jdmontenegro
opened
3 years ago
9
How to get feature counts using prepDE.py?
#306
mathavanpu
opened
3 years ago
0
Why stringtie2.1.4 is not better than stringtie1.3.5 ?
#305
jinghui1012
opened
3 years ago
0
still have an issue with MSTRG in place of transcriptname and geneID after using gffcompare annotation mode
#304
laurentierney
opened
3 years ago
0
Tuning parameters for long-read alignment prior to stringtie2
#303
shnmunk
opened
3 years ago
0
Error running prepDE.py
#302
venuraherath
closed
3 years ago
0
Stringtie 2.1.4: Error running prepDE.py
#301
venuraherath
closed
3 years ago
1
Error: Getting the input alignment file is not sorted! even though file is sorted
#300
venuraherath
closed
3 years ago
7
create_rna_sr.py gets Killed during "assign_reads" step
#299
bfpedro
closed
3 years ago
3
prepDE.py Error: Text file with sample ID and path invalid ()
#298
play131937
opened
3 years ago
3
GffNameList Error: invalid index
#297
sruddle
opened
3 years ago
2
Stringtie with old Illumina RNA-seq data
#296
francicco
opened
3 years ago
1
Error while combining transcript abundance files using Python script
#294
poulami29
opened
4 years ago
0
TPM values do not add up to 1 million; coverage and TPM values do not add up.
#293
harish3689
opened
4 years ago
1
Issue with StringTie Installation
#292
balayev1
closed
4 years ago
1
Gffcompare and Stringtie FPKM estimation?
#291
TommySchooner
opened
4 years ago
1
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