Bioconductor Genome

Showing : genome • reset

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466

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ensembldb transcriptome genome coordinateconversion

updated 8 months ago by Michael Love 43k • written 8 months ago by saadmurtazakhan ▴ 10

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851

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build genome

21 months ago Dmitry • 0

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3.3k

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Genome bwamem ChIPSeqData index

updated 22 months ago by ATpoint ★ 4.6k • written 22 months ago by Maka • 0

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1.3k

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Alignment Genome

3.2 years ago Charles Plessy ▴ 180

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1.6k

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Genome readVcf VariantAnnotation

3.8 years ago naive • 0

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1.3k

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Genome GWASdata

3.8 years ago Jocelyn • 0

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1.2k

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annotation genome hg38 TxDb.Hsapiens.UCSC.hg38.knownGene BSgenome.Hsapiens.UCSC.hg38

updated 4.9 years ago by kayla.interdonato ▴ 160 • written 4.9 years ago by jam526 • 0

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1.3k

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Gviz R UCSC Tracks genome locusplot

updated 5.2 years ago by Robert Ivanek ▴ 750 • written 5.2 years ago by s.koturan • 0

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1.1k

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single cell bioinformatics genome sequencing Job

5.3 years ago jmaanaki • 0

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2.3k

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annotation gff3 gff genome

updated 5.3 years ago by Michael Lawrence ★ 11k • written 5.3 years ago by mictadlo ▴ 10

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3.1k

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txdb genome exons

updated 5.4 years ago by Martin Morgan 25k • written 5.4 years ago by Bogdan ▴ 670

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1.0k

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single cell genome cancer Job

5.6 years ago jmaanaki • 0

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1.0k

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genome novel package release

updated 5.9 years ago by James W. MacDonald 67k • written 5.9 years ago by pertille • 0

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1.5k

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multiplealignment genome

6.2 years ago Giuseppe ▴ 20

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1.4k

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r build genome chicken-sheme

9.1 years ago pertille • 0

15 results • Page 1 of 1

Recent ...

Replies

Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0

Thanks for your reply!

Votes

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

A: Expected counts from RSEM in DESeq2

A: Using RSEM reads for DESeq2

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