Showing: rsem • reset
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239
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Large fold changes after deseq2 when one condition has two zeros and small number the other condition has two zeros and a large number
rnaseq deseq2 rsem written 8 months ago by loliveira • 0
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IRanges error while input rsem data into ballgown : .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges")
iranges ballgown rsem written 10 months ago by kicheol.kim • 0
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IRanges error while input rsem data into ballgown : .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges")
iranges ballgown rsem written 10 months ago by kicheol.kim • 0
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174
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Using tximport on RSEM abundance date
rnaseq tximport rsem written 10 months ago by raeganlynn123 • 0 • updated 10 months ago by Michael Love ♦ 23k
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249
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DE analysis of orthologs with varying sequence lengths using RSEM+tximport+DEseq2: normalization for sequence length?
deseq2 differential expression tximport rsem sequence length normalization written 11 months ago by al-ash • 20 • updated 11 months ago by Michael Love ♦ 23k
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countsFromAbundance for gene-level RSEM import in tximport
tximport rsem written 11 months ago by celi0001 • 0 • updated 11 months ago by Michael Love ♦ 23k
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198
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RSEM output in txtimport
rsem txtimport written 11 months ago by gat2010 • 0
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526
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Differences in gene length passed to DESeq2 by tximport reulted in different gene rankings
deseq2 tximport rsem saimon written 12 months ago by LD • 0 • updated 12 months ago by Michael Love ♦ 23k
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Using tximport on rsem files produces error while trying to read in files
rnaseq R tpm tximport rsem written 14 months ago by stephan.emmrich • 0
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241
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tximport failing at importing TPM instead of FPKM
rnaseq tximport rsem written 15 months ago by fresard.laure • 0 • updated 14 months ago by rosabellascottgm • 0
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2
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513
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tximport's parameter for countsFromAbundance doesn't work
edger tximport rsem written 15 months ago by tim.ivanov.92 • 0
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306
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Data object format for deseq2
deseq2 R rsem written 16 months ago by tim.ivanov.92 • 0 • updated 16 months ago by Michael Love ♦ 23k
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483
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RNA-seq read alignment best practices for low-input samples
alignment limma differential gene expression rsem rnaseq analysis written 17 months ago by goldberg.jm • 10 • updated 17 months ago by Aaron Lun • 23k
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818
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Importing RSEM transcript-level data using tximport
tximport rsem written 18 months ago by Patrick Kimes • 0 • updated 18 months ago by Michael Love ♦ 23k
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836
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Tximport with RSEM error
rsem written 19 months ago by hs.lansdell • 10 • updated 19 months ago by k.vitting.seerup • 90
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511
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Obtaining transcript names in RSEM
tximport rsem written 20 months ago by deena • 10 • updated 20 months ago by Michael Love ♦ 23k
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441
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Using RSEM reads for DESeq2
deseq2 rsem written 20 months ago by deeptiptl74 • 0 • updated 20 months ago by Michael Love ♦ 23k
3
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665
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Filtering step in Differential analysis with RSEM values
edger differential gene expression rsem written 21 months ago by Biologist • 70 • updated 21 months ago by Gordon Smyth ♦ 37k
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884
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confusion with tximport options and resulting matrix
rnaseq limma voom tximport rsem written 22 months ago by arubio • 0 • updated 22 months ago by Gordon Smyth ♦ 37k
1
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636
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Differential analysis with RSEM normalized counts using limma without voom
limma differential gene expression tcga rsem written 22 months ago by Biologist • 70 • updated 22 months ago by James W. MacDonald ♦ 50k
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Clustering differential expression results from voomWithQualityWeights
limma edger rna rsem written 2.1 years ago by hrishi27n • 20 • updated 2.1 years ago by Gordon Smyth ♦ 37k
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How to normalize-transform rsem.genes.results of TCGA RNA-seq v2?
rnaseq normalization R tcga rsem written 2.2 years ago by panagiotis.mokos • 30
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840
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RSEM output in DeSeq2
deseq2 count matrix rsem written 2.3 years ago by kmeusemann • 0 • updated 2.3 years ago by Michael Love ♦ 23k
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Possible ways of performing differential gene expression and analysis of RNA-Seq data from normalized counts of RSEM software
rnaseq normalization edger tcga rsem written 2.4 years ago by svlachavas • 660 • updated 2.4 years ago by Gordon Smyth ♦ 37k
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Expected counts from RSEM in DESeq2
deseq2 rsem expected_counts raw_counts written 2.4 years ago by chudar.chudar • 0 • updated 2.4 years ago by Michael Love ♦ 23k
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