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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 19 days ago by brett.vanderwerff • 20
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Is it appropriate to apply RUVseq on output from kallisto?
batchcorrection kallisto rna-seq written 4 weeks ago by unawaz • 40 • updated 4 weeks ago by kristoffer.vittingseerup • 1.4k
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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 5 weeks ago by Anthony.Knox • 50 • updated 5 weeks ago by Charles Warden ♦ 6.1k
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kallisto with reference genome
kallisto rna-seq written 7 weeks ago by vm.higareda • 20
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139
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Kallisto output giving average fragment lengths of zero(0)
kallisto rna-seq written 9 weeks ago by hannyarko.hn • 0
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Is Kallisto able to deal with UMIs and paired-end RNASeq?
umi kallisto rna-seq written 10 weeks ago by antgomo • 30 • updated 10 weeks ago by genomax ♦ 62k
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kallisto + sleuth: no results
R sleuth kallisto rna-seq written 18 months ago by stephanie.devos • 0 • updated 10 weeks ago by gilbo • 10
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Is Kallisto good for identifying non-coding RNA in a RNAseq data?
bioinformatics kallisto rna-seq allignment written 10 weeks ago by priyankaraina10 • 10 • updated 10 weeks ago by kristoffer.vittingseerup • 1.4k
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estimating read length and SD for Kallisto (single-end QuantSeq reads)
quantseq alignment kallisto lexogen rna-seq written 11 weeks ago by cats_dogs • 0 • updated 11 weeks ago by michael.ante • 3.0k
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Is Sleuth a good package?
R sleuth kallisto rna-seq written 2.4 years ago by SmallChess • 470
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How to compare kallisto and stringtie output
stringtie next-gen kallisto rna-seq sequencing written 3 months ago by yusuf.zhc • 0 • updated 3 months ago by kristoffer.vittingseerup • 1.4k
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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 2.1 years ago by james.lloyd • 80 • updated 3 months ago by lalvarez • 10
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How to run sleuth in single run mode?
sleuth kallisto rna-seq written 3 months ago by aquaq • 10
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Kallisto estimated sd and fragment length
alignment kallisto rna-seq written 3 months ago by bharata1803 • 400
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Should cndas provided by Ensembl be filtered by ccds or biotype prior to running kallisto?
isoforms kallisto written 4 months ago by holgerbrandl • 30
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Single Kallisto abundance
deseq2 kallisto rna-seq written 5 months ago by Duckula • 0
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Will Kallisto or Salmon perform streaming alignment from the Sequence Read Archive?
pseudoaligners salmon kallisto written 5 months ago by b10hazard • 20 • updated 5 months ago by RamRS ♦ 20k
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Is Kallisto Sleuth pipeline suitable for all organisms?
sleuth kallisto rna-seq written 8 months ago by SMILE • 90 • updated 5 months ago by prasundutta87 • 310
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Visualizing alignment of kallisto .bam files to hg19 (and custom plasmids)
kallisto rna-seq igv written 5 months ago by Kristin Muench • 350 • updated 5 months ago by pmelsted • 80
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Kallisto and homologous genes expression
honologous genes ase kallisto written 6 months ago by afli • 160
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Recent metatranscriptomics workflow
metatranscriptomics workflow kallisto written 7 months ago by dark.lord • 0
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kallisto pseudoaligned bam files to IGV
kallisto rna-seq igv written 7 months ago by hothriananya • 50
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What is the optimal read length filter for Kallisto post adapter removal?
kallisto rna-seq written 8 months ago by bipin • 10
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Sleuth PCA plots - how to change axis to percentage?
R sleuth pca kallisto rna-seq written 18 months ago by BioBing • 100 • updated 8 months ago by bruce.moran • 500
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Kallisto TPM values
tpm kallisto written 8 months ago by oliveira.bhn • 10
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what is the corresponding proteome or transcriptome (cDNA fasta in Ensembl) file in NCBI?
assembly quantification kallisto rna-seq index written 8 months ago by SMILE • 90
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Getting average fragment length for single end reads
differential expresion kallisto rna-seq written 21 months ago by Sreeraj Thamban • 120 • updated 8 months ago by dark.lord • 0
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Paired and Multivariate sleuth
R sleuth kallisto rna-seq written 18 months ago by Tim D • 50 • updated 9 months ago by samantha_jeschonek • 50
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7 follow
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Kallisto will not produce .bam files
kallisto rna-seq written 9 months ago by Kristin Muench • 350 • updated 9 months ago by Kevin Blighe ♦ 37k
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Alternative splicing analysis following kallisto?
kallisto rna-seq alternative splicing written 10 months ago by dina.hesham139 • 100 • updated 10 months ago by kristoffer.vittingseerup • 1.4k
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