Bioconductor Atac

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705

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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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666

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ATAC DiffBind ATACSeq

updated 15 months ago by Rory Stark ★ 5.2k • written 15 months ago by Hadar • 0

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1.2k

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diffbind atac

updated 4.0 years ago by Rory Stark ★ 5.2k • written 4.0 years ago by lindsaynhayes • 0

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557

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r DiffBind ATAC

updated 4.2 years ago by Rory Stark ★ 5.2k • written 4.2 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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777

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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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954

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Diffbind ATAC batch correction blocking factor

updated 4.8 years ago by Rory Stark ★ 5.2k • written 4.8 years ago by rm1238 • 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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3.0k

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subread featurecounts atac

updated 5.1 years ago by Wei Shi ★ 3.6k • written 5.1 years ago by aurel.nagy ▴ 10

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1.4k

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diffbind ATACseq ATAC counts differential analysis

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

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4.9k

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diffbind atac

7.0 years ago • updated 6.9 years ago niu.shengyong • 0

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4.6k

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ATAC differential binding analysis no replicates DEseq2 chromatin

7.2 years ago BioinfGuru ▴ 30

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1.4k

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Diffbind Atac adapters

updated 7.2 years ago by Rory Stark ★ 5.2k • written 7.2 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 42k • 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 9.0 years ago by Gordon Smyth 50k • written 9.0 years ago by samuel collombet ▴ 140

16 results • Page 1 of 1

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Comment: Ensembl plants at annotationHub? by Daniele • 0

Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele

Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30

Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…

Answer: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by makala • 0

Thanks a lot!

Comment: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by Erik Wright ▴ 150

Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…

Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa by Matthew Thornton ▴ 360

So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!

Votes

Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools

Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa

Rsubread counting peaks ATACseq

Comment: Can DESeq2 rlog normalized matrix reflects time course result directly?

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