Bioconductor Atac

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669

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rna-seq Read10X_h5 atac modalities

updated 13 months ago by James W. MacDonald 65k • written 13 months ago by Cynthia • 0

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646

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ATAC DiffBind ATACSeq

updated 14 months ago by Rory Stark ★ 5.1k • written 14 months ago by Hadar • 0

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1.2k

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diffbind atac

updated 3.9 years ago by Rory Stark ★ 5.1k • written 3.9 years ago by lindsaynhayes • 0

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548

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r DiffBind ATAC

updated 4.1 years ago by Rory Stark ★ 5.1k • written 4.1 years ago by lindsaynhayes • 0

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1.4k

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limma edger atac atac-seq

updated 4.2 years ago by Aaron Lun ★ 28k • written 4.2 years ago by pgugger ▴ 70

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762

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deseq2 design formula design matrix edgeR ATAC

updated 4.4 years ago by Gordon Smyth 50k • written 4.4 years ago by corinne_hutfilz • 0

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936

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Diffbind ATAC batch correction blocking factor

updated 4.7 years ago by Rory Stark ★ 5.1k • written 4.7 years ago by rm1238 • 0

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1.7k

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ATACseqQC ATAC ATACseq software error Tutorial

updated 4.8 years ago by Steve Lianoglou ★ 13k • written 4.8 years ago by mbasam • 0

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2.9k

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subread featurecounts atac

updated 5.0 years ago by Wei Shi ★ 3.6k • written 5.0 years ago by aurel.nagy ▴ 10

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1.3k

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diffbind ATACseq ATAC counts differential analysis

updated 5.1 years ago by Rory Stark ★ 5.1k • written 5.1 years ago by pgontarz ▴ 10

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2.2k

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diffbind atac

updated 5.2 years ago by Rory Stark ★ 5.1k • written 5.2 years ago by paz2005 • 0

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4.8k

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diffbind atac

6.9 years ago niu.shengyong • 0

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4.5k

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ATAC differential binding analysis no replicates DEseq2 chromatin

7.1 years ago BioinfGuru ▴ 30

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1.4k

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Diffbind Atac adapters

updated 7.1 years ago by Rory Stark ★ 5.1k • written 7.1 years ago by BioinfGuru ▴ 30

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2.8k

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atac-seq atac deseq2 sva combat

updated 7.2 years ago by Michael Love 41k • written 7.2 years ago by g.atla ▴ 10

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6.1k

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Chipseq DNAseq ATAC bayespeak narrowpeaks

updated 8.9 years ago by Gordon Smyth 50k • written 8.9 years ago by samuel collombet ▴ 140

16 results • Page 1 of 1

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Comment: Trying to use enrichGO by fernanda.backsouza • 0

Thank you for yout time guido, 1) When the pvalueCutoff = 1 nothing change. 2) output from str(ortologos_filtrados) data.frame': 14 obs. …

Comment: Trying to use enrichGO by Guido Hooiveld ★ 3.9k

Please provide more information! In your first post you seem to report another error than in your 2nd post: `No gene can be mapped...` vers…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k

I don't really have any additional suggestion here.

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0

Dear Michael, I tried all three ways (the orIginal, increasing the number of required samples,and subsetting (the countdata and metadata be…

Comment: DESeq2 - dispersion estimation when there is none by Michael Love 41k

The red line does assume that shape but the fact the black points show that pattern is discussed in the 2014 paper. > Some caution is warr…

Votes

DESeq2: How to find out how well the model fits the data?

Comment: DESeq2 - dispersion estimation when there is none

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa

Answer: OrgDb for maize

Answer: DESeq2 - dispersion estimation when there is none

Awards • All

Scholar to Michael Love 41k