Showing: tximport • reset
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tximport in DESeq2 problem
tximport written 9 days ago by abskumar • 0 • updated 9 days ago by Michael Love ♦ 24k
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tximport::summarizeToGene fails to ignoreTxVersion
annotationdbi tximport tximeta written 13 days ago by Benjamin • 0
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Data downloaded from GEO has raw transcript count matrix- can I still use tximport? Collapse raw transcript count matrix to GENE LEVEL
tximport collapse written 14 days ago by agm • 0 • updated 14 days ago by Michael Love ♦ 24k
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Get gene level summaries from table of transcript level quantification
deseq2 tximport written 14 days ago by ljmills • 0 • updated 14 days ago by James W. MacDonald ♦ 50k
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tximport from Galaxy output
normalization tximport written 26 days ago by agustin.gonvi • 10 • updated 26 days ago by Michael Love ♦ 24k
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Importing Salmon counts with tximport with host and virus genomes
salmon tximport written 28 days ago by rbenel • 0 • updated 28 days ago by Michael Love ♦ 24k
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tximport discrepancy between TPMs and lengthScaledTPMs
tximport written 29 days ago by igor • 20 • updated 28 days ago by Michael Love ♦ 24k
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inferential replicates in Kallisto when summarising values via tximport
tximport written 4 weeks ago by Mozart • 10 • updated 4 weeks ago by Michael Love ♦ 24k
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Importing transcript abundance datasets generated with Salmon 0.14.0
tximport written 5 weeks ago by edoardobertolini • 0 • updated 5 weeks ago by Michael Love ♦ 24k
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how to set offset matrix to Deseq2 differential analysis
deseq2 tximport kallisto written 6 weeks ago by qwzhang0601 • 0 • updated 6 weeks ago by Michael Love ♦ 24k
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Salmon / tximport
deseq2 tximport written 6 weeks ago by polaxgr • 10 • updated 6 weeks ago by Michael Love ♦ 24k
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Correlation of gene expression values using tpms and normalized counts
deseq2 tximport written 8 weeks ago by taliaferrojm • 0 • updated 8 weeks ago by Michael Love ♦ 24k
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Correct use of tximport in combination with edgeR cpm()
edger tximport written 9 weeks ago by ATpoint • 10 • updated 9 weeks ago by James W. MacDonald ♦ 50k
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Tximport and pseudo alignment with Kallisto
deseq2 tximport kallisto written 9 weeks ago by Mozart • 10 • updated 9 weeks ago by Michael Love ♦ 24k
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Robust FPM with normalization factors (from tximport)?
normalization deseq2 tximport written 10 weeks ago by Roger • 0 • updated 10 weeks ago by Michael Love ♦ 24k
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output of the function "makeCountsFromAbundance"
tximport written 11 weeks ago by capricygcapricyg • 0 • updated 11 weeks ago by James W. MacDonald ♦ 50k
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tximport, Kallisto and Deseq2 (quick answer)
deseq2 counts tximport kallisto written 11 weeks ago by Mozart • 10 • updated 11 weeks ago by Michael Love ♦ 24k
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tximport and txOut
deseq2 tximport written 11 weeks ago by Merlin • 10 • updated 11 weeks ago by Michael Love ♦ 24k
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Tximport error (probably annotation lowercase incompatibility)
annotation gtf arabidopsis tximport written 3 months ago by francoagp • 0 • updated 3 months ago by Michael Love ♦ 24k
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error in aSwitchlist (isoformswitchanalyzeR)
rnaseq salmon tximport isoformswitchanalyzer written 3 months ago by saddamhusain77 • 0 • updated 3 months ago by k.vitting.seerup • 90
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dtuScaledTPM vs lengthScaledTPM in DTU analysis
salmon tpm tximport dtu rnaseqdtu written 3 months ago by fiona.dick91 • 10 • updated 3 months ago by Michael Love ♦ 24k
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quant.sf files and tximport, transcripts not recognized
salmon tximport written 3 months ago by Merlin • 10 • updated 3 months ago by Michael Love ♦ 24k
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Doubts about: Salmon -> Tximport -> Deseq2(vst) -> cox-regression
deseq2 salmon vst tximport cox-regression written 3 months ago by filippo.martignano • 0 • updated 3 months ago by Michael Love ♦ 24k
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Error in H5Fopen with kallisto .h5 files
rhdf5 tximport kallisto written 3 months ago by uso2015 • 0
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Salmon (quant.sf) to tximport error
tximport written 3 months ago by Merlin • 10 • updated 3 months ago by Michael Love ♦ 24k
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