Bioconductor MACS2

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9.2k

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atac-seq diffbind macs2 macs peak finding

updated 7.1 years ago by BioinfGuru ▴ 30 • written 7.7 years ago by igor ▴ 40

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2.2k

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diffbind macs2 chip-seq

6.4 years ago chunhong.liu07 ▴ 10

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939

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diffbind macs2

updated 6.0 years ago by Rory Stark ★ 5.2k • written 6.1 years ago by Lauma R ▴ 10

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1.6k

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DiffBind macs2

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

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1.3k

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DiffBind MACS2

updated 3.7 years ago by Rory Stark ★ 5.2k • written 3.7 years ago by ep15587 • 0

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844

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DESeq2 MACS2

17 months ago vanbelj ▴ 30

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4.8k

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diffbind macs2

updated 8.4 years ago by Gord Brown ▴ 650 • written 8.4 years ago by tony ▴ 10

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1.8k

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ChIPSeq SICER2 DiffBind MACS2 offtopic

updated 2.9 years ago by James W. MacDonald 65k • written 2.9 years ago by Yuan Tian ▴ 280

8 results • Page 1 of 1

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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k

That's an assumption used for normalization of a sample, not an assumption you can use for an individual model. We always normalize to atte…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350

Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0

Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre

Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k

Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…

Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0

Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…

Votes

biomaRt error: database disk image is malformed

Comment: biomaRt : No lock file for BiocFileCache

Answer: Cross-species analysis - how to compute the mid parent value?

Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2

Awards • All

Scholar to James W. MacDonald 65k

Supporter to JKim • 0