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GoekeLab
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bambu
Reference-guided transcript discovery and quantification for long read RNA-Seq data
GNU General Public License v3.0
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Questions regarding example in README.dm
#349
piechottam
closed
1 year ago
3
bug fix merge
#348
cying111
closed
1 year ago
0
Bug FIxes
#347
andredsim
closed
1 year ago
1
BiocParallel Error
#341
AJTDaedalus
closed
1 year ago
1
BiocParallel errors when running bambu for quantification
#340
zzare-umd
closed
1 year ago
8
Trying to use bambu on an offline cluster
#339
skudashev
closed
1 year ago
2
Plans for Single Cell Support
#338
atrull314
closed
1 year ago
5
discovery and quant issue
#337
seongwoohan
closed
1 year ago
3
update release version
#336
cying111
closed
1 year ago
0
update BambuManuscriptRevision branch
#335
cying111
closed
1 year ago
0
Windows genome bug
#334
andredsim
closed
1 year ago
1
update BambuManuscriptRevision branch
#333
cying111
closed
2 years ago
0
Tracking read-to-transcript assignment
#332
sunsetyerin
closed
1 year ago
6
Bambu manuscript revision
#331
cying111
closed
2 years ago
1
Update unit tests
#330
andredsim
closed
2 years ago
0
Intron retention detection
#329
smf96
closed
2 years ago
5
update branch
#328
jonathangoeke
closed
2 years ago
0
Bambu manuscript revision
#327
jonathangoeke
closed
2 years ago
0
Use integer equiRC for quant
#326
cying111
closed
2 years ago
0
Improve UX
#325
andredsim
closed
2 years ago
0
Bambu manuscript revision
#324
cying111
closed
2 years ago
0
User Friendliness
#323
andredsim
closed
2 years ago
0
Update Unit Tests
#322
andredsim
closed
2 years ago
0
test readWrite
#321
andredsim
closed
2 years ago
0
Unit test update
#320
andredsim
closed
2 years ago
0
Address NDR update comments
#319
andredsim
closed
2 years ago
0
Tidy Input Parameters
#318
andredsim
closed
2 years ago
0
NDR error (unused argument)
#317
seongwoohan
closed
2 years ago
5
BiocParallel error during isoform quantification step
#316
ajritter8
closed
2 years ago
7
BAMBU extended gtf file output?
#315
seongwoohan
closed
2 years ago
5
update vignettes
#314
cying111
closed
2 years ago
0
Bambu manuscript revision
#313
cying111
closed
2 years ago
0
Data loading issue
#312
seongwoohan
closed
2 years ago
4
Patch readme
#311
cying111
closed
2 years ago
0
How does bambu handle secondary/supplementary alignmets, low MAPQ, and MAPQ=0 (reads that align equally well to 2+ loci)?
#310
bernardo-heberle
closed
2 years ago
1
fix error when seqlevels of annotations does not contain complete seqlevels of fasta and data
#309
cying111
closed
2 years ago
1
Update xgboost saved models
#308
andredsim
closed
2 years ago
0
Update xgboost saved models
#307
andredsim
closed
2 years ago
0
NDR Feature Update (Only to Review)
#306
andredsim
closed
2 years ago
0
Update Documentation
#305
andredsim
closed
2 years ago
3
Unit test for writeBambuOutput and update bambu output
#304
lingminhao
closed
2 years ago
0
"Novel" highly expressed mitochondrial transcript discovered with Bambu not found in IGV genome browser read stack.
#303
bernardo-heberle
closed
2 years ago
5
error with bambu for a big file
#302
yeroslaviz
closed
2 years ago
3
Output counts grouped by a cell barcode field in BAM file?
#301
danledinh
closed
2 years ago
1
Novel/Unannotated Isoforms
#300
ajritter8
closed
2 years ago
12
remove partial length counts report as they are not so useful and can be easily get by total counts minus full length counts
#299
cying111
closed
2 years ago
0
Counting step includes all reads feed in in the BAM
#298
callumparr
closed
2 years ago
1
Unit test and documentation for function: compareTranscripts
#297
lingminhao
closed
2 years ago
0
add unit test for writeBambuOutput and update bambu output
#296
lingminhao
closed
2 years ago
0
update se object in extdata with theta column
#295
lingminhao
closed
2 years ago
0
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