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Question about Quantifying Exon Expression with TPM
gene expression tpm written 16 days ago by scholastic_grade_descent • 0
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72
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Working with Mean TPM Values for Heatmaps
heatmap tpm rna-seq dice written 23 days ago by nk130 • 0
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2
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77
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Meaning of columns in TSV Kallisto mapped file
tpm kallisto differential expression written 28 days ago by Antonio R. Franco • 4.5k
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137
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5 follow
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retrieve TPM matrix from raw counts matrix or DESeq2 object dds
deseq2 tpm raw counts tcga brca written 6 weeks ago by HKS • 20 • updated 6 weeks ago by igor ♦ 11k
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Batch effect correction for RNAseq visualization
R tpm deseq rna-seq batch written 7 weeks ago by fbleao • 0
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164
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TPM-like normalization of time series RNAseq data to minimize dispersion of counts within replicates
time-series normalization tpm rna-seq written 10 weeks ago by AnonymousEngineer • 0
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5 follow
1
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Kallisto TPM values
tpm kallisto written 2.1 years ago by oliveira.bhn • 10 • updated 10 weeks ago by CrisMar • 70
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1
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161
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1
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Should I normalize TPM data?
gene tpm written 3 months ago by jt • 0
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195
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which normalization method for my RNA-seq data set?
deseq2 tpm rna-seq edger tmm written 3 months ago by nyoegut • 10 • updated 3 months ago by genomax ♦ 85k
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Append TPM value to sequence header in FASTA file
fasta tpm rna-seq transcripts linux written 4 months ago by molly77 • 10 • updated 4 months ago by JC ♦ 10k
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167
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comparative gene quantification, problem with COGs and hypothetical proteins.
gene tpm cog abundance written 4 months ago by Hansen_869 • 20
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1
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171
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1
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TPM Cutoff For Venn Diagrams
cutoff tpm venn rna-seq written 5 months ago by jehammo • 0 • updated 5 months ago by jared.andrews07 ♦ 6.2k
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258
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Is there a way where we can convert TPM to raw read count?
normalization tpm read count rna-seq written 5 months ago by Researcher • 50
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202
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Accounting for differences in FASTQ-file size, when comparing metagenomic gene abundance between samples
gene reads metagenomics tpm written 5 months ago by Hansen_869 • 20 • updated 5 months ago by tshtatland • 60
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228
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which Length of gene is valid for using in Transcript Per million (TPM)?
normalization tpm rna-seq written 6 months ago by modarzi • 120 • updated 6 months ago by Kevin Blighe ♦ 61k
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258
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why the TPM value is not same?
R tpm normalizing edger rpkm written 7 months ago by star • 240 • updated 7 months ago by RamRS ♦ 27k
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1
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321
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1
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Differential expression tool that can take TPM as input?
differential-expression tpm rna-seq written 7 months ago by Tye Kahn • 10 • updated 7 months ago by ATpoint ♦ 36k
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Why you shouldn't normalize count data using gene-length AND library size for count analysis?
normalization metagenomics deseq2 tpm counts written 8 months ago by sundaresan.vinaik • 10
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TMM or TPM normalized counts for visualization?
normalization tpm edger tmm written 2.1 years ago by sam.vanc70 • 30 • updated 8 months ago by simplitia • 40
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551
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Using FPKM and TPM values for batch correction for Single Cell RNA-Seq
scrna-seq batch correction fpkm tpm rna-seq written 9 months ago by hkarakurt • 100 • updated 9 months ago by shoujun.gu • 310
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Generate gene level TPM from quant.sf file generated in salmon
R txtimport salmon rna-seq tpm written 10 months ago by pyrhana25 • 0 • updated 10 months ago by i.sudbery ♦ 8.1k
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How to normalized TPM with TMM method?
tpm rna-seq edger tmm written 12 months ago by xiaoguang • 20 • updated 10 months ago by Gordon Smyth • 1.7k
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TPM on SingleCell RNASeq
tpm rna-seq scrnaseq written 10 months ago by difraiadomenico • 0
8
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1
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538
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1
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Metric to use for RNAseq expression matrix
expression tpm counts rna-seq batch effect written 11 months ago by RamRS ♦ 27k • updated 11 months ago by i.sudbery ♦ 8.1k
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Can I compare TPM values for a transcript across different transcriptome assemblies?
gene expression tpm rna-seq transcript written 11 months ago by molly77 • 10
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395
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HISAT2/stringtie: intron impact on expression
tpm stringtie mrna expression rna-seq hisat2 written 11 months ago by Adrian Pelin • 2.4k • updated 11 months ago by kristoffer.vittingseerup • 3.3k
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744
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How to convert Xena Browser normalized RSEM values to TPM values?
xenabrowser tpm rna-seq written 13 months ago by carlee.bettler • 10 • updated 13 months ago by Charles Warden ♦ 7.8k
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Calculating FPKM and TPM by hand from htseq-count output?
htseq fpkm tpm rna-seq written 15 months ago by Joel Wallenius • 70 • updated 13 months ago by Biostar ♦♦ 20
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561
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Ensembl ID and counts to FPKM/TPM
R fpkm exon tpm rna-seq written 13 months ago by jordan.mandel • 0 • updated 13 months ago by h.mon ♦ 30k
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How to filter low expressed genes based on TPM expression?
gene R tpm rna-seq filtering written 14 months ago by newbie • 70 • updated 14 months ago by Prakash • 1.9k
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