Bioconductor Atac

Showing : Atac • reset

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376

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ATACSeq peaks ATAC ChIPpeakAnno

6 months ago Raghad • 0

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969

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rna-seq Read10X_h5 atac modalities

updated 20 months ago by James W. MacDonald 67k • written 20 months ago by Cynthia • 0

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831

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ATAC DiffBind ATACSeq

updated 21 months ago by Rory Stark ★ 5.2k • written 21 months ago by Hadar • 0

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diffbind atac

updated 4.5 years ago by Rory Stark ★ 5.2k • written 4.5 years ago by lindsaynhayes • 0

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670

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r DiffBind ATAC

updated 4.7 years ago by Rory Stark ★ 5.2k • written 4.7 years ago by lindsaynhayes • 0

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1.8k

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limma edger atac atac-seq

updated 4.7 years ago by Aaron Lun ★ 28k • written 4.7 years ago by pgugger ▴ 70

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910

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deseq2 design formula design matrix edgeR ATAC

updated 4.9 years ago by Gordon Smyth 51k • written 4.9 years ago by corinne_hutfilz • 0

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1.1k

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Diffbind ATAC batch correction blocking factor

updated 5.3 years ago by Rory Stark ★ 5.2k • written 5.3 years ago by rm1238 • 0

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ATACseqQC ATAC ATACseq software error Tutorial

updated 5.4 years ago by Steve Lianoglou ★ 13k • written 5.4 years ago by mbasam • 0

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3.5k

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subread featurecounts atac

updated 5.6 years ago by Wei Shi ★ 3.6k • written 5.6 years ago by aurel.nagy ▴ 10

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1.6k

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diffbind ATACseq ATAC counts differential analysis

updated 5.7 years ago by Rory Stark ★ 5.2k • written 5.7 years ago by pgontarz ▴ 10

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2.5k

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diffbind atac

updated 5.8 years ago by Rory Stark ★ 5.2k • written 5.8 years ago by paz2005 • 0

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5.8k

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diffbind atac

7.5 years ago niu.shengyong ▴ 10

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4.9k

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ATAC differential binding analysis no replicates DEseq2 chromatin

7.7 years ago BioinfGuru ▴ 70

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1.5k

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Diffbind Atac adapters

updated 7.7 years ago by Rory Stark ★ 5.2k • written 7.7 years ago by BioinfGuru ▴ 70

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atac-seq atac deseq2 sva combat

updated 7.7 years ago by Michael Love 42k • written 7.7 years ago by g.atla ▴ 10

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6.6k

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Chipseq DNAseq ATAC bayespeak narrowpeaks

updated 9.5 years ago by Gordon Smyth 51k • written 9.5 years ago by samuel collombet ▴ 140

17 results • Page 1 of 1

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Comment: Differene between the Wald and LRT test for time-series gene expression data by Denise • 0

This makes a lot of sense, thank you very much!

Comment: Downloading Metagenomic Data with Higher Taxonomic Units by elozanoe • 0

Hi! I'm facing the same problem. Is there any easy way to output relative abundances of higher taxonomic units (up to kingdom), similar to…

Comment: Is it recommended to analyze different tissues together when using edgeR by Gordon Smyth 51k

Just plot the samples with plotMDS(). Alternatively you would use `voomLmFit()` with `sample.weights=TRUE` or `var.group=tissue`. In princ…

Comment: Handling Epic Array Data by Melisa Tecik • 0

Thanks a lot for the help. You saved my day

Answer: Differene between the Wald and LRT test for time-series gene expression data by James W. MacDonald 67k

The advantage to using the LRT is that it's an omnibus test that tells you if there are changes at any time point. If you have lots of time…

Votes

A: correcting the batch effects in Limma and SVA

A: Using of limma moderated t-test with "corrected" expression matrix resulting fr

Answer: Differene between the Wald and LRT test for time-series gene expression data

Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela

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