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BrooksLabUCSC
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flair
Full-Length Alternative Isoform analysis of RNA
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diffsplice_fishers_exact error when dealing with ir.events.quant.tsv
#250
QingCheZhang
opened
1 year ago
2
Unable to install Flair using bioconda
#249
jwyli
closed
1 year ago
1
predictproductivity python script error after flair collapse step
#248
BijalThakkar
closed
1 year ago
0
Revert "Stranded alignment for dRNA in flair quantify"
#247
MViscardi-UCSC
closed
1 year ago
0
Stranded alignment for dRNA in flair quantify
#246
MViscardi-UCSC
closed
1 year ago
1
Unable to find minimap2 in conda environment
#245
RDorney
closed
1 year ago
0
"Superset isoform" definition in flair filter_collapsed_isoforms.py
#244
mariachiaragrieco
opened
1 year ago
2
Testing Flair: missing file
#243
RDorney
closed
1 year ago
2
Flair align fails with pysam libcrypto.so.1.0.0 not found
#242
vpeddu
closed
5 months ago
2
predictProductivity seems incompatible with rvolden/Mandalorion-derived GTF
#240
ajritter8
closed
1 year ago
6
adds quoting to handle wildcard characters in filenames
#239
chrisamiller
closed
1 year ago
0
Escaping asterisks in file names
#238
chrisamiller
closed
1 year ago
4
Threading issues with ssCorrect.py: RuntimeError: cannot join thread before it is started
#237
chrisamiller
closed
1 year ago
4
Question about filter option in collapsing step
#236
eprdz
opened
1 year ago
0
diffSplice showing the same value for all replicates
#235
fburdet
closed
1 year ago
1
DRIMSeq output has same value for all replicates
#234
mnsmar
opened
1 year ago
1
open(os.path.join(tempDir, "%s_inconsistent.bed" % chrom),'rb') as fd
#233
gaobaoqing-picb
closed
5 months ago
7
gtf_to_bed and bed_to_sequence commands not in the conda environment
#232
Shruti-BioCode
closed
1 year ago
3
Feature request: add genes to flair diffSplice output
#231
Jeltje
opened
1 year ago
0
Flair collapse requires >1TB of RAM
#230
oneillkza
opened
1 year ago
6
add TES junction support
#229
seungbeom-han
closed
1 year ago
0
Should I turn on or turn off the "--u_substitution" for guppy basecalling if I use Flair for my downstream analysis?
#228
yjx1217
closed
1 year ago
1
--fusion_dist option in collapse module
#227
Drosofriends
closed
1 year ago
8
Collapse with range option does not give isoform.fa and isoform.gtf
#226
hd00ljy
closed
1 year ago
4
collapse range for multiple samples
#225
hd00ljy
closed
1 year ago
0
Slow processing speed for the large number of samples (collapse stage)
#224
hd00ljy
closed
1 year ago
2
inconsistency of isoform_ids formatting of flair diffSplice regarding "es" relative to "alt3", "alt5", and "ir"
#223
yjx1217
closed
1 year ago
1
Flair collapse --annotation_reliant doesn't run without --generate_map
#222
cafelton
closed
1 year ago
1
Error running flair collapse with both --annotation_reliant and --check_splice
#221
cafelton
closed
1 year ago
3
DRIMSeq was triggered even without specifiying '--test' for flair diffSplice
#220
yjx1217
closed
1 year ago
3
Unable to run bam2bed12
#219
gcorre
closed
1 year ago
3
diffSplice 'returned non-zero exit status'
#218
MustafaElshani
closed
1 year ago
9
FLAIR correct error with chr1_inconsistent.bed?
#217
seongwoohan
closed
1 year ago
1
RGB code issue in .bed12 output for single exons
#216
suegrimes
opened
1 year ago
0
Flair Collapse: NameError: name 'res' is not defined
#215
itslittman
closed
1 year ago
7
diffExp incomplete output
#214
MustafaElshani
closed
1 year ago
2
predictProductivity 'inconsistent naming convention' error
#213
MustafaElshani
closed
1 year ago
11
deFLAIR cannot run on more than two groups
#212
Jeltje
opened
1 year ago
0
assign reads into isoforms without mapping
#211
xieyy46
closed
1 year ago
2
Truncated, non-full length reads
#210
vicasze
closed
1 year ago
6
Interpreting output
#209
ajritter8
closed
1 year ago
9
Pip installable version
#208
Jeltje
closed
2 years ago
0
flair correct error
#207
guandailu
closed
2 years ago
2
no .bed out from flair.py align
#206
MustafaElshani
closed
2 years ago
2
annotation_reliant index out of range
#205
mintstella0419
closed
2 years ago
0
failed at counting step for isoform read support [COLLAPSE]
#204
Drosofriends
closed
2 years ago
18
fixed args for collapse
#203
xyloforce
closed
2 years ago
0
Fatal error: unable to initialize the JIT
#202
wenmm
closed
1 year ago
1
list index out of range while retraining TARSClassifier
#201
zeos
closed
1 year ago
1
ssCorrect.py FileNotFoundError when running flair correct
#200
peterthorpe5
closed
1 year ago
5
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