Bioconductor Tutorial

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Training Bioconductor Event Community Tutorial

12 months ago Maria Doyle ▴ 70

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1.1k

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beginner Bioconductor tutorial examples

updated 2.2 years ago by Gordon Smyth 50k • written 2.2 years ago by Sara • 0

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1.2k

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tutorial DESeq2 pasilla

3.2 years ago Carina • 0

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2.2k

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mass spectrometry proteomics metabolomics Tutorial

written 3.6 years ago by Johannes Rainer ★ 2.0k

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3.1k

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limma deseq2 Tutorial

updated 3.6 years ago by Gordon Smyth 50k • written 3.6 years ago by yuemolinn • 0

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917

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tximport Cufflink Tutorial

updated 3.6 years ago by Kevin Blighe ★ 3.9k • written 3.6 years ago by LeiaMax2020 • 0

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738

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deseq2 Tutorial

updated 3.7 years ago by Kevin Blighe ★ 3.9k • written 3.7 years ago by taniachavarria79 • 0

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1.3k

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clusterProfiler r Tutorial

updated 3.7 years ago by Kevin Blighe ★ 3.9k • written 3.7 years ago by adR ▴ 30

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915

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STRT-Seq single-cell tutorial

updated 3.9 years ago by Aaron Lun ★ 28k • written 3.9 years ago by tiphaine.martin • 0

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653

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deseq2 Tutorial

updated 4.0 years ago by Michael Love 42k • written 4.0 years ago by Anna.bramucci • 0

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1.7k

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bioconductor libdrstats Tutorial

updated 4.0 years ago by Laurent Gatto 1.6k • written 4.0 years ago by Leonardo Collado Torres ★ 1.0k

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2.1k

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software error Tutorial

updated 4.0 years ago by Zuguang Gu ▴ 260 • written 4.0 years ago by AR3513 • 0

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2.1k

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salmon tximeta Tutorial

4.1 years ago Michael Love 42k

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1.7k

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DEXSeq log2foldchange Tutorial

updated 2.7 years ago by rohitsatyam102 ▴ 20 • written 4.1 years ago by tmvarsha ▴ 20

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2.0k

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deseq2 Tutorial

updated 4.1 years ago by Michael Love 42k • written 4.1 years ago by Nas 1989 • 0

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9.3k

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curl biomart getBM Tutorial

updated 4.1 years ago by James W. MacDonald 65k • written 4.1 years ago by Ni-Ar ▴ 10

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2.9k

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R 3.6.2 update problems with igraph and phangorn update Phyloseq igraph phangorn Tutorial

updated 4.4 years ago by Martin Morgan 25k • written 4.4 years ago by crgarcia • 0

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12k

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deseq2 combat Knownbatcheffect Tutorial

updated 3.2 years ago by Samuel Daniel • 0 • written 4.6 years ago by rajeshparmar4 ▴ 10

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872

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DMCHMM Tutorial

updated 4.7 years ago by shepherl 3.9k • written 4.7 years ago by shokoohi • 0

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4.6k

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scRNA monocle packages Tutorial

4.7 years ago 444579004 • 0

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1.2k

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deseq2 annotation Tutorial

updated 4.7 years ago by Martin Morgan 25k • written 4.7 years ago by trumbia • 0

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3.5k

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software error Tutorial

updated 4.7 years ago by Laurent Gatto 1.6k • written 4.7 years ago by naeemurself • 0

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1.5k

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Tutorial annotation

updated 2.6 years ago by Kevin Blighe ★ 3.9k • written 4.8 years ago by prodhan82 ▴ 20

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1.9k

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software error esATAC zlib.h Ubuntu Tutorial

updated 4.8 years ago by Martin Morgan 25k • written 4.8 years ago by vedbar • 0

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1.8k

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ATACseqQC ATAC ATACseq software error Tutorial

updated 4.9 years ago by Steve Lianoglou ★ 13k • written 4.9 years ago by mbasam • 0

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2.2k

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champ Tutorial

updated 4.8 years ago by Yuan Tian ▴ 280 • written 4.9 years ago by learning.iq84 • 0

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1.8k

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clusterProfiler font size Tutorial

updated 5.0 years ago by Gordon Smyth 50k • written 5.0 years ago by bony.dekumar ▴ 10

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2.0k

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BioMart downloading reference genome alignment Tutorial

5.1 years ago jcollidelcs • 0

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1.4k

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deseq2 limma edger Tutorial

updated 5.1 years ago by Michael Love 42k • written 5.1 years ago by wwu222 • 0

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1.8k

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minfi infinium 450K Tutorial

5.2 years ago lalchungnungabt17 • 0

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9.0k

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support.bioconductor.org editor markdown updates Tutorial

updated 6 weeks ago by Mj.A. • 0 • written 5.3 years ago by shepherl 3.9k

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1.4k

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monocle differential gene expression detectgenes function Tutorial

5.3 years ago S.Webb6 ▴ 40

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1.5k

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snp multiple sequence alignment fasta Tutorial

updated 5.6 years ago by Martin Morgan 25k • written 5.6 years ago by pltbiotech_tkarthi • 0

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1.2k

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deseq2 tximport tximportdata pasilla Tutorial

updated 5.6 years ago by Michael Love 42k • written 5.6 years ago by Stanley Yang • 0

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1.2k

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GSVA tutorial

updated 5.6 years ago by Robert Castelo ★ 3.3k • written 5.7 years ago by owen.whitley ▴ 10

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2.6k

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edger Tutorial

updated 5.7 years ago by Hotz, Hans-Rudolf ▴ 400 • written 5.7 years ago by ilovesuperheroes1993 • 0

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1.3k

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edger plot Tutorial

updated 5.7 years ago by Gordon Smyth 50k • written 5.7 years ago by Juan • 0

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1.5k

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limma normalization Tutorial

updated 5.8 years ago by James W. MacDonald 65k • written 5.8 years ago by devarajsaranya • 0

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1.9k

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gseabase msigdb genesetcollection Tutorial

written 5.9 years ago by t.kuilman ▴ 170

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3.3k

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tximport Tutorial

updated 6.0 years ago by Steve Lianoglou ★ 13k • written 6.0 years ago by nelson.s.garcia ▴ 10

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2.6k

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deseq2 Tutorial

6.0 years ago krwyaong.ju • 0

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2.4k

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ChAMP tutorial

6.1 years ago Dave Emir • 0

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2.1k

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deseq2 genetics Tutorial

updated 6.1 years ago by James W. MacDonald 65k • written 6.1 years ago by anokhi1997 • 0

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5.0k

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R GEO geoquery geoquery error message Tutorial

6.3 years ago martinguerrerog89 ▴ 20

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1.6k

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methylkit Tutorial

updated 6.4 years ago by Martin Morgan 25k • written 6.4 years ago by s1432985 • 0

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1.4k

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deseq2 Tutorial

updated 6.5 years ago by Gordon Smyth 50k • written 6.5 years ago by mariamari693693 • 0

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1.8k

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SC3 single cell single-cell Tutorial

updated 6.5 years ago by Martin Morgan 25k • written 6.5 years ago by ahmed.elewa ▴ 20

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2.3k

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pathview korg subscript out of bounds Tutorial

updated 6.6 years ago by Luo Weijun ★ 1.6k • written 6.6 years ago by aacevedo • 0

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2.2k

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subversion bioc-devel package development usedevel Tutorial

6.8 years ago Bohdan Khomtchouk ▴ 10

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3.9k

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public data TCGA GTEx Tutorial

6.8 years ago shepherl 3.9k

50 results • Page 1 of 1

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Comment: Help with running egsea() by Chris • 0

I tried egsea.ma and got this error: gsa = egsea.ma(fit2, vector_group, probe_annotation, contrasts = contrast_matrix, gs.annots = gs.…

Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by angelathuynh5 • 0

Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…

Comment: Limma without eBayes, is it indistunguishable from Ordinary Least Square? by Gordon Smyth 50k

The formula given in the original question is correct and yours is not. Your formula isn't even constrained to be between 0 and 1. Here is …

Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k

sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…

Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k

I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?

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Answer: confused with tximport counts abundance using salmon input

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call

Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu

Answer: Extremely small p-values using Limma for proteomic data

Answer: How to save the DEXSeq results

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Popular Question to Gyan Prakash Mishra ▴ 10