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2
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How to make a loop to run kallisto bus command for so many fastq.gz files at once?
loop bash kallisto kallisto|bustools written 5 days ago by F. Golestan • 20
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158
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Understanding kallisto qc metrics in run_info.json
scrna-seq alignment kallisto rna-seq written 13 days ago by MutationalMeltdown • 30
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0
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113
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How to map RNASeq data to reference genome to check T-DNA insertions?
genome gene alignment kallisto rna-seq written 13 days ago by Wuschel • 230
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138
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Kallisto | bustools workflow for fastq with R1 and R2 (forward and reverse)?
scrna-seq kallisto lior pachter kallisto|bustools written 21 days ago by F. Golestan • 20 • updated 21 days ago by h.mon ♦ 27k
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116
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scRNA-seq: Kallisto processing of bioproject data (fastq-dump)
scrna-seq bioproject fastq-dump kallisto rna-seq written 4 weeks ago by bsmith030465 • 150
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76
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unique alignment in kallisto
kallisto written 5 weeks ago by sg927357 • 0
4
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1
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274
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1
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Single-nucleus RNA-seq processing (10x) with Pseudoaligners (Kallisto)
scrna-seq kallisto rna-seq written 6 weeks ago by achamess • 50 • updated 6 weeks ago by Lior Pachter • 440
3
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1
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131
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1
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Bootstrap value in kallisto
kallisto written 6 weeks ago by sg927357 • 0
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2
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189
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5 follow
2
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How to change my colnames(count.table) as exactly similar to my rownames(meta)?
tximport R deseq2 kallisto rna-seq written 12 weeks ago by F. Golestan • 20 • updated 12 weeks ago by ATpoint ♦ 24k
4
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1
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159
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1
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How to quantify the RNA-seq reads using Kallisto?
kallisto rna-seq written 3 months ago by F. Golestan • 20 • updated 3 months ago by RamRS ♦ 24k
1
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1
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183
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1
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comparing kallisto rsem , makind sd plot and corelation table /graph
rsem deseq2 kallisto edger rnaseqcomp written 3 months ago by yusuf • 30 • updated 3 months ago by WouterDeCoster ♦ 41k
3
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1
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275
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1
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Build a Kallisto transcriptome index
pseudo-alignment kallisto rna-seq written 3 months ago by F. Golestan • 20 • updated 3 months ago by Lior Pachter • 440
4
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1
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178
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5 follow
1
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Comparing different transcripts expression level of a list of genes from one condition
R deseq2 salmon kallisto rna-seq written 3 months ago by mr.monahton • 20 • updated 3 months ago by andrew.j.skelton73 ♦ 5.8k
0
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248
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0
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Low pseudo-alignment rate with Kallisto
kallisto written 3 months ago by msubramanian1 • 0
1
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200
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0
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How to merge Kallisto TSV files for use with Tximport
tximport R kallisto rna-seq written 4 months ago by RCAider19 • 0
0
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0
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140
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0
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Sleuth analysis with unbalanced categories
sleuth kallisto rna-seq written 5 months ago by dlukacsovich • 0
3
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1
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620
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1
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Kallisto and downstream analysis with tximport and DESeq2
tximport deseq2 kallisto rna-seq written 5 months ago by Mozart • 140
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250
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Is there a good way to get the proportions of isoforms *within* a condition using output from kallisto
isoforms kallisto rna-seq written 8 months ago by brett.vanderwerff • 20
0
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1
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442
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1
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Is it appropriate to apply RUVseq on output from kallisto?
batchcorrection kallisto rna-seq written 9 months ago by unawaz • 50 • updated 9 months ago by kristoffer.vittingseerup • 2.4k
6
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1
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640
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1
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Tool: Graphical User Interface for creating an automated RNA-Sequencing Pipeline via Kallisto and DESeq2
deseq2 kallisto rna-seq tool written 9 months ago by Anthony.Knox • 50 • updated 9 months ago by Charles Warden ♦ 7.3k
2
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592
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kallisto with reference genome
kallisto rna-seq written 9 months ago by vm.higareda • 20
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315
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0
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Kallisto output giving average fragment lengths of zero(0)
kallisto rna-seq written 10 months ago by hannyarko.hn • 0
1
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563
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0
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Is Kallisto able to deal with UMIs and paired-end RNASeq?
umi kallisto rna-seq written 10 months ago by antgomo • 30 • updated 10 months ago by genomax ♦ 73k
4
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5 follow
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kallisto + sleuth: no results
R sleuth kallisto rna-seq written 2.2 years ago by stephanie.devos • 0 • updated 10 months ago by gilbo • 20
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1
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620
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5 follow
1
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Is Kallisto good for identifying non-coding RNA in a RNAseq data?
bioinformatics kallisto rna-seq allignment written 10 months ago by priyankaraina10 • 10 • updated 10 months ago by kristoffer.vittingseerup • 2.4k
3
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1
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709
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1
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estimating read length and SD for Kallisto (single-end QuantSeq reads)
quantseq alignment kallisto lexogen rna-seq written 10 months ago by cats_dogs • 0 • updated 10 months ago by michael.ante • 3.5k
18
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2.6k
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1
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Is Sleuth a good package?
R sleuth kallisto rna-seq written 3.1 years ago by SmallChess • 500
3
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2
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494
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2
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How to compare kallisto and stringtie output
stringtie next-gen kallisto rna-seq sequencing written 11 months ago by yusuf • 30 • updated 11 months ago by kristoffer.vittingseerup • 2.4k
0
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1.4k
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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 2.8 years ago by james.lloyd • 90 • updated 11 months ago by lalvarez • 10
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How to run sleuth in single run mode?
sleuth kallisto rna-seq written 11 months ago by aquaq • 10
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