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repeatmask fasta file
teelements salmon repeatmask index written 14 days ago by lkianmehr • 30 • updated 3 days ago by Biostar ♦♦ 20
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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 22 months ago by james.lloyd • 80 • updated 4 days ago by lalvarez • 10
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May I use numreads for doing DGE after quantifying by Salmon
salmon dge written 4 days ago by lkianmehr • 30 • updated 4 days ago by WouterDeCoster ♦ 34k
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salmon - tximport - deseq2 gene level workflow
tximport deseq2 salmon rna-seq written 7 days ago by jomo018 • 440
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rRNA removal needed for salmon / DESeq2 analysis
rrna deseq2 salmon contamination written 11 days ago by mark.dunning • 200
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126
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Bash: salmon command not found
salmon rna-seq bash written 11 days ago by ab123 • 40
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5 follow
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Average Insert Size When Using Transcript Quantification Tools Such as Salmon?
next-gen salmon rna-seq written 25 days ago by Dru Zod • 0 • updated 24 days ago by Rob ♦ 2.8k
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Alignment-free tools (like Kallisto or Salmon): useful for bacterial transcriptomes?
bacteria salmon rna-seq written 25 days ago by arctan • 0 • updated 25 days ago by Istvan Albert ♦♦ 78k
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Orientation of reads in .fastq files from RNA-Seq
salmon rna-seq written 5 weeks ago by newbio17 • 0 • updated 5 weeks ago by swbarnes2 ♦ 4.5k
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Salmon (error: SAM file and fasta file have different transcript length)
salmon rna-seq written 5 weeks ago by shivyasoni1994 • 0 • updated 5 weeks ago by jomo018 • 440
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Salmon error message
salmon rna-seq written 5 weeks ago by saadleeshehreen • 40 • updated 5 weeks ago by Devon Ryan ♦ 86k
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how do Differential gene expression analysis by Salmon output
salmon differential gene expression written 5 weeks ago by lkianmehr • 30 • updated 5 weeks ago by genomax ♦ 58k
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Interpretation of Salmon quat.sf result
salmon rna-seq written 6 weeks ago by saadleeshehreen • 40 • updated 6 weeks ago by h.mon ♦ 21k
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Salmon very low mapping
salmon rna-seq written 12 months ago by Tania • 120 • updated 7 weeks ago by Biostar ♦♦ 20
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Will Kallisto or Salmon perform streaming alignment from the Sequence Read Archive?
pseudoaligners salmon kallisto written 10 weeks ago by b10hazard • 20 • updated 10 weeks ago by RamRS ♦ 19k
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Salmon Quantification for RNA-seq Read Pairs with Different Lengths
quantification salmon rna-seq written 10 weeks ago by ATpoint ♦ 9.3k
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Salmon quantification vs HTSeq count quantification
htseq-count salmon written 11 weeks ago by vincentpailler • 30 • updated 11 weeks ago by h.mon ♦ 21k
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Salmon Algorithm Binary Search
salmon written 3 months ago by vincentpailler • 30 • updated 3 months ago by Rob ♦ 2.8k
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5 follow
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Mapping vs Quasi-Mapping
salmon quasi-mapping written 3 months ago by vincentpailler • 30
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Difference between HTSeq-count & Salmon quant results
htseq-count salmon rna-seq written 3 months ago by vincentpailler • 30 • updated 3 months ago by genomax ♦ 58k
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Salmon / IGV
salmon igv written 3 months ago by vincentpailler • 30 • updated 3 months ago by h.mon ♦ 21k
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Big differences between mappings computed by Salmon and quantification
salmon rna-seq integrated genome viewer written 4 months ago by KDA • 20 • updated 4 months ago by Rob ♦ 2.8k
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Salmon choosing library type
alignment salmon written 4 months ago by bharata1803 • 380 • updated 4 months ago by igor ♦ 7.0k
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How can I produce gene level quantification using Salmon pseudo-aligner?
salmon rna-seq gene quantification written 5 months ago by Angelique • 10 • updated 4 months ago by stefanos.bamopoulos • 30
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Error with snakemake
python pipeline snakemake salmon written 5 months ago by Biologist • 90 • updated 5 months ago by WouterDeCoster ♦ 34k
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191
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Salmon tool giving an error about the library type
salmon alignment rna rna-seq library written 5 months ago by Bioinfo • 270
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193
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Genes' length to get RPKM if features count is not used?
rpkm salmon rna-seq edger written 6 months ago by Sharon • 370 • updated 6 months ago by h.mon ♦ 21k
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357
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RNAseq Tximport transcript counts to gene counts
tximport salmon rna-seq written 6 months ago by s.kyungyong64 • 10 • updated 6 months ago by h.mon ♦ 21k
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How to add tdtomato to mouse genome for RNA seq analysis
salmon rna-seq written 7 months ago by jevanveen • 20
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Library type warning in Salmon
rnaseq salmon library-type written 7 months ago by grant.hovhannisyan • 1.2k • updated 7 months ago by Rob ♦ 2.8k
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