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4
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1
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63
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1
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What transcript quantification tool would you recommend for 3' prime RNA-seq?
transcript quantification salmon rna-seq written 1 day ago by roy.granit • 750 • updated 1 day ago by WouterDeCoster ♦ 36k
0
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0
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70
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0
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Extract unmapped reads from salmon output
salmon rna-seq written 5 days ago by vaushev • 10
0
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0
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92
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0
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how do normalization for transcript length
tximport transcript coverage salmon plot written 8 days ago by lkianmehr • 30
0
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0
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80
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0
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Hypsibius dujardini locus ID conversion
alignment salmon rna-seq written 4 weeks ago by stanley.ju • 0
0
votes
1
answer
281
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5 follow
1
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FASTQ alignment result is really bad
htseq-count salmon rna-seq written 5 weeks ago by bharata1803 • 390 • updated 5 weeks ago by h.mon ♦ 22k
0
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0
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154
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0
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repeatmask fasta file
teelements salmon repeatmask index written 11 weeks ago by lkianmehr • 30 • updated 9 weeks ago by Biostar ♦♦ 20
0
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1
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1.1k
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1
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What is the Sleuth intercept and how can Sleuth be used when you have >2 treatment types?
sleuth salmon kallisto rna-seq dte written 2.0 years ago by james.lloyd • 80 • updated 9 weeks ago by lalvarez • 10
0
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2
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156
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2
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May I use numreads for doing DGE after quantifying by Salmon
salmon dge written 9 weeks ago by lkianmehr • 30 • updated 9 weeks ago by WouterDeCoster ♦ 36k
0
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0
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197
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0
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salmon - tximport - deseq2 gene level workflow
tximport deseq2 salmon rna-seq written 10 weeks ago by jomo018 • 470
2
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2
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183
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2
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rRNA removal needed for salmon / DESeq2 analysis
rrna deseq2 salmon contamination written 10 weeks ago by mark.dunning • 200
3
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1
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249
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1
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Bash: salmon command not found
salmon rna-seq bash written 10 weeks ago by ab123 • 40
5
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2
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265
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6 follow
2
answers
Average Insert Size When Using Transcript Quantification Tools Such as Salmon?
next-gen salmon rna-seq written 12 weeks ago by Dru Zod • 0 • updated 12 weeks ago by Rob ♦ 3.0k
3
votes
1
answer
216
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1
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Alignment-free tools (like Kallisto or Salmon): useful for bacterial transcriptomes?
bacteria salmon rna-seq written 12 weeks ago by arctan • 0 • updated 12 weeks ago by Istvan Albert ♦♦ 78k
3
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1
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287
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1
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Orientation of reads in .fastq files from RNA-Seq
salmon rna-seq written 3 months ago by newbio17 • 10 • updated 3 months ago by swbarnes2 ♦ 4.7k
4
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2
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469
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2
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Salmon (error: SAM file and fasta file have different transcript length)
salmon rna-seq written 3 months ago by shivyasoni1994 • 0 • updated 3 months ago by jomo018 • 470
1
vote
1
answer
221
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1
answer
Salmon error message
salmon rna-seq written 3 months ago by saadleeshehreen • 60 • updated 3 months ago by Devon Ryan ♦ 87k
3
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0
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325
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0
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how do Differential gene expression analysis by Salmon output
salmon differential gene expression written 3 months ago by lkianmehr • 30 • updated 3 months ago by genomax ♦ 60k
3
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1
answer
216
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1
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Interpretation of Salmon quat.sf result
salmon rna-seq written 3 months ago by saadleeshehreen • 60 • updated 3 months ago by h.mon ♦ 22k
1
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0
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1.2k
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0
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Salmon very low mapping
salmon rna-seq written 14 months ago by Tania • 120 • updated 3 months ago by Biostar ♦♦ 20
3
votes
1
answer
238
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1
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Will Kallisto or Salmon perform streaming alignment from the Sequence Read Archive?
pseudoaligners salmon kallisto written 4 months ago by b10hazard • 20 • updated 4 months ago by RamRS ♦ 20k
11
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2
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416
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2
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Salmon Quantification for RNA-seq Read Pairs with Different Lengths
quantification salmon rna-seq written 4 months ago by ATpoint ♦ 12k
5
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2
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265
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2
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Salmon quantification vs HTSeq count quantification
htseq-count salmon written 4 months ago by vincentpailler • 40 • updated 4 months ago by h.mon ♦ 22k
3
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1
answer
240
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1
answer
Salmon Algorithm Binary Search
salmon written 5 months ago by vincentpailler • 40 • updated 5 months ago by Rob ♦ 3.0k
11
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1
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859
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6 follow
1
answer
Mapping vs Quasi-Mapping
salmon quasi-mapping written 5 months ago by vincentpailler • 40
4
votes
1
answer
482
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1
answer
Difference between HTSeq-count & Salmon quant results
htseq-count salmon rna-seq written 5 months ago by vincentpailler • 40 • updated 5 months ago by genomax ♦ 60k
2
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1
answer
309
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1
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Salmon / IGV
salmon igv written 5 months ago by vincentpailler • 40 • updated 5 months ago by h.mon ♦ 22k
5
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1
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554
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1
answer
Big differences between mappings computed by Salmon and quantification
salmon rna-seq integrated genome viewer written 6 months ago by KDA • 20 • updated 6 months ago by Rob ♦ 3.0k
2
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2
answers
355
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2
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Salmon choosing library type
alignment salmon written 7 months ago by bharata1803 • 390 • updated 6 months ago by igor ♦ 7.2k
1
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2
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420
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2
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How can I produce gene level quantification using Salmon pseudo-aligner?
salmon rna-seq gene quantification written 7 months ago by Angelique • 10 • updated 7 months ago by stefanos.bamopoulos • 30
0
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1
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579
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1
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Error with snakemake
python pipeline snakemake salmon written 7 months ago by Biologist • 130 • updated 7 months ago by WouterDeCoster ♦ 36k
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