Bioconductor Bigwig

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2.5k

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DESeq2 edgeR bigwig limma

3.2 years ago • updated 2.9 years ago Bogdan ▴ 670

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2.8k

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bedgraph wiggleplotr bigwig wig

updated 3.3 years ago by complaintguide • 0 • written 3.3 years ago by Bogdan ▴ 670

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2.1k

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bigWig RNASeqData

3.8 years ago bas_work ▴ 30

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2.7k

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software error BigWig import windows

5.7 years ago lsilva.m • 0

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2.7k

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wiggleplotr bigwig coverage ngs

updated 8.2 years ago by kaur.alasoo ▴ 30 • written 8.2 years ago by borgmichael • 0

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4.2k

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bigwig rtracklayer import granges grangeslist

updated 8.4 years ago by Michael Lawrence ★ 11k • written 8.4 years ago by Assa Yeroslaviz ★ 1.5k

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1.5k

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rtracklayer bigwig import

updated 9.1 years ago by Michael Lawrence ★ 11k • written 9.1 years ago by zx8754 ▴ 10

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1.9k

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bigwig rtracklayer export.bw

updated 9.1 years ago by Michael Lawrence ★ 11k • written 9.1 years ago by story.benjamin ▴ 20

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3.1k

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rtracklayer bigwig

updated 9.8 years ago by laurent.lacroix ▴ 30 • written 9.9 years ago by koneill ▴ 30

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1.6k

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rtracklayer BigWig

updated 10.0 years ago by Michael Lawrence ★ 11k • written 10.1 years ago by dborgesrmit • 0

10 results • Page 1 of 1

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Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150

Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?

Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k

BTW, I tested with no issue on MacOS ARM on our previous github issue.

Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k

The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…

Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Votes

C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

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Popular Question to James W. MacDonald 68k