Showing: tximport • reset
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67
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Correlation of gene expression values using tpms and normalized counts
deseq2 tximport written 8 days ago by taliaferrojm • 0 • updated 8 days ago by Michael Love ♦ 23k
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153
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Correct use of tximport in combination with edgeR cpm()
edger tximport written 10 days ago by ATpoint • 0 • updated 10 days ago by James W. MacDonald ♦ 50k
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Tximport and pseudo alignment with Kallisto
deseq2 tximport kallisto written 10 days ago by maria • 10 • updated 10 days ago by Michael Love ♦ 23k
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Robust FPM with normalization factors (from tximport)?
normalization deseq2 tximport written 18 days ago by Roger • 0 • updated 18 days ago by Michael Love ♦ 23k
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output of the function "makeCountsFromAbundance"
tximport written 25 days ago by capricygcapricyg • 0 • updated 25 days ago by James W. MacDonald ♦ 50k
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86
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tximport, Kallisto and Deseq2 (quick answer)
deseq2 counts tximport kallisto written 29 days ago by maria • 10 • updated 29 days ago by Michael Love ♦ 23k
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71
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tximport and txOut
deseq2 tximport written 4 weeks ago by Merlin • 10 • updated 4 weeks ago by Michael Love ♦ 23k
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70
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Tximport error (probably annotation lowercase incompatibility)
annotation gtf arabidopsis tximport written 7 weeks ago by francoagp • 0 • updated 7 weeks ago by Michael Love ♦ 23k
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error in aSwitchlist (isoformswitchanalyzeR)
rnaseq salmon tximport isoformswitchanalyzer written 7 weeks ago by saddamhusain77 • 0 • updated 7 weeks ago by k.vitting.seerup • 90
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dtuScaledTPM vs lengthScaledTPM in DTU analysis
salmon tpm tximport dtu rnaseqdtu written 7 weeks ago by fiona.dick91 • 10 • updated 7 weeks ago by Michael Love ♦ 23k
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96
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quant.sf files and tximport, transcripts not recognized
salmon tximport written 7 weeks ago by Merlin • 10 • updated 7 weeks ago by Michael Love ♦ 23k
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109
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Doubts about: Salmon -> Tximport -> Deseq2(vst) -> cox-regression
deseq2 salmon vst tximport cox-regression written 8 weeks ago by filippo.martignano • 0 • updated 7 weeks ago by Michael Love ♦ 23k
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Error in H5Fopen with kallisto .h5 files
rhdf5 tximport kallisto written 8 weeks ago by uso2015 • 0
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124
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Salmon (quant.sf) to tximport error
tximport written 8 weeks ago by Merlin • 10 • updated 8 weeks ago by Michael Love ♦ 23k
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140
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Normalisation for count data visualisation only
normalization deseq2 salmon tximport written 10 weeks ago by Alex So • 0 • updated 10 weeks ago by Michael Love ♦ 23k
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101
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Counts, abundance in Tximport
tximport written 11 weeks ago by hong • 0
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246
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txi <- tximport(files, type="salmon", tx2gene=tx2gene) Error in tximport(files, type = "salmon", tx2gene = tx2gene) : all(file.exists(files)) is not TRUE
deseq2 tximport files file.path file.exists written 12 weeks ago by Leo K • 0
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[deseq2] normalization between samples after merging transcripts into genes
deseq2 tximport written 3 months ago by marie • 0 • updated 3 months ago by Michael Love ♦ 23k
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154
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tximport question on the values contained in "counts" and "abundance" matrices
tximport written 3 months ago by HKS • 0 • updated 3 months ago by James W. MacDonald ♦ 50k
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1
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118
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Htseq files import via tximport
tximport importer written 3 months ago by sally.badawi • 0 • updated 3 months ago by Michael Love ♦ 23k
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1
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104
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tximport: question concerning 'bias corrected counts without an offset' method
deseq2 tximport written 3 months ago by Thomas Bradley • 0 • updated 3 months ago by Michael Love ♦ 23k
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108
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DESeqFromMatrix for 3'end data via tximport; non-integer values
deseq2 tximport written 3 months ago by cats_dogs • 20 • updated 3 months ago by Michael Love ♦ 23k
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2
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139
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tximport: Error in medianLengthOverIsoform
dexseq deseq2 tximport written 3 months ago by d-joester • 20
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188
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Error : Salmon tximport to DESeq2
deseq2 tximport written 4 months ago by saddamhusain77 • 0 • updated 4 months ago by Michael Love ♦ 23k
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195
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tximport error with kallisto .h5 files
deseq2 tximport kallisto written 4 months ago by steve.standage • 0 • updated 4 months ago by Michael Love ♦ 23k
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