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<prev • 139 results • page 1 of 5 • next >
5
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1
answer
160
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1
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Batch-correction on tximport data from salmon
salmon sva deseq2 combat rna-seq written 6 weeks ago by mfrech6 • 0
4
votes
1
answer
205
views
1
answer
3' RNA-seq (Lexogen Quant-seq) Mapping Problems with Salmon
quant salmon rna-seq index written 10 weeks ago by bdy8 • 10
0
votes
0
answers
167
views
0
answers
How represent isoforms in different tracks in a genome browser?
reads alignment salmon rna-seq isoform written 3 months ago by Bardt9 • 0 • updated 3 months ago by Biostar ♦♦ 20
0
votes
1
answer
212
views
1
answer
Makes sense to conduct SALMON mapping followed by NOIseq for differential expression analysis?
noiseq salmon rna-seq written 3 months ago by YEODYNASTY • 10
0
votes
0
answers
291
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0
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running salmon on bam files
salmon star collate written 3 months ago by inah • 0 • updated 3 months ago by GenoMax ♦ 94k
0
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0
answers
157
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0
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Using Salmon to Quantify shRNA Library
shrna salmon written 3 months ago by DeadlyFall • 0
1
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1
answer
172
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1
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CAST/EiJ mouse strain Reference Transcriptome (do we have one? if not, how to build?)
mouse cast salmon transcriptome written 3 months ago by Rhodnius • 0 • updated 3 months ago by mark.ziemann • 1.3k
1
vote
1
answer
375
views
1
answer
GTF based salmon index file for GRCh38
salmon rna-seq index written 3 months ago by parvathi.sudha • 20
8
votes
2
answers
516
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7 follow
2
answers
Building Salmon Index
salmon rna-seq index written 3 months ago by SeroroO • 20 • updated 3 months ago by ATpoint ♦ 44k
2
votes
1
answer
311
views
1
answer
Gibbs sampling/bootstrap replicates in Salmon
salmon uncertainty written 3 months ago by Dunois • 430 • updated 3 months ago by Rob ♦ 4.6k
0
votes
0
answers
266
views
0
answers
Transcripts with no read support
assembly alignment salmon rna-seq written 4 months ago by Dunois • 430
9
votes
1
answer
729
views
8 follow
1
answer
How does salmon deal with decoy?
salmon rna rna-seq written 4 months ago by Cindy • 10 • updated 4 months ago by Rob ♦ 4.6k
2
votes
0
answers
252
views
0
answers
Trouble with choosing the right reference transcriptome file for mm10
genome salmon kallisto rna-seq sequencing written 5 months ago by wyoo083 • 0
2
votes
1
answer
343
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1
answer
Salmon with Sleuth
sleuth salmon rna-seq written 5 months ago by koaeb • 10 • updated 5 months ago by dsull • 1.7k
1
vote
0
answers
204
views
0
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Import Salmon output by tximport
tximport R salmon rna-seq written 5 months ago by koaeb • 10 • updated 5 months ago by _r_am ♦ 32k
0
votes
0
answers
205
views
0
answers
Salmon number of burn-in fragments warning
salmon mapping rna-seq written 5 months ago by bioinfo_cat • 0 • updated 5 months ago by h.mon ♦ 32k
3
votes
1
answer
1.1k
views
1
answer
Dependencies auto-installed with Conda?
salmon conda nesoni written 4.1 years ago by Liflock • 0 • updated 5 months ago by Biostar ♦♦ 20
1
vote
1
answer
257
views
1
answer
Tximport error with Salmon data
R salmon rna-seq written 5 months ago by lilyolmstead • 0 • updated 5 months ago by _r_am ♦ 32k
3
votes
1
answer
328
views
1
answer
Salmon auxiliary output
salmon written 15 months ago by g.wang2 • 10 • updated 6 months ago by mcsimenc • 10
0
votes
1
answer
2.5k
views
1
answer
Error with snakemake
python pipeline snakemake salmon written 2.6 years ago by Biologist • 190 • updated 6 months ago by Biostar ♦♦ 20
1
vote
0
answers
189
views
0
answers
Event- vs transcript-based approaches for analyzing alternative splicing
rmats salmon rna-seq alternative splicing written 6 months ago by fmerkal • 30
8
votes
1
answer
383
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7 follow
1
answer
Transcript level counts from full length scRNA data
scrna salmon star rna-seq written 6 months ago by geek_y ♦ 11k
3
votes
0
answers
417
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5 follow
0
answers
Having trouble running Salmon in Anaconda prompt
software error anaconda salmon python written 8 months ago by zal4002 • 0 • updated 7 months ago by zx8754 ♦ 9.9k
3
votes
1
answer
209
views
1
answer
Tximport Error ... unable to match up my quant.sf and tx2gene columns
tximport salmon rna-seq written 7 months ago by 2405592M • 100
0
votes
0
answers
306
views
0
answers
Compare expression level of isoforms among conditions - TPM or deseq2 normalised counts?
tximport deseq2 salmon rna-seq written 7 months ago by tianshenbio • 70
5
votes
2
answers
640
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5 follow
2
answers
DEseq2 results differs greatly when comparing output from STAR/featureCounts and Salmon
deseq2 salmon star rna-seq written 7 months ago by testtube • 10 • updated 7 months ago by Rob ♦ 4.6k
0
votes
0
answers
210
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0
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Salmon validating best settings for use case
salmon rna-seq validation written 8 months ago by yryan • 0
0
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0
answers
253
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0
answers
salmon TPM output to linear regression in R
salmon rna-seq lm written 8 months ago by evelyn • 130
1
vote
1
answer
332
views
1
answer
salmon shell script to automate quant
shellscript salmon written 8 months ago by amitpande74 • 10 • updated 8 months ago by ATpoint ♦ 44k
25
votes
1
answer
3.7k
views
12 follow
1
answer
Mapping vs Quasi-Mapping
salmon quasi-mapping written 2.4 years ago by pablo • 150 • updated 8 months ago by biochemistry-tehran • 0
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