Bioconductor Genomeintervals

Showing : genomeintervals • reset

votes

replies

388

views

genomeIntervals GenomicRanges

9 months ago gshweta95 • 0

votes

replies

1.6k

views

granges bed genomicranges genomeintervals deseq2

6.9 years ago rbronste ▴ 60

votes

1.8k

views

genomeintervals UTRs exons CDS GenomicRanges

updated 7.4 years ago by Michael Lawrence ★ 11k • written 7.4 years ago by rubi ▴ 110

votes

replies

1.5k

views

nclist genomeintervals

updated 8.9 years ago by Hervé Pagès 16k • written 8.9 years ago by Jurat Shahidin ▴ 80

votes

1.3k

views

genomeIntervals

updated 9.5 years ago by Nicolas Delhomme ▴ 320 • written 9.7 years ago by mhz • 0

vote

replies

1.9k

views

genomeintervals

updated 9.5 years ago by Nicolas Delhomme ▴ 320 • written 9.5 years ago by sjackman • 0

votes

2.8k

views

BSgenome hexbin BSgenome IRanges genomeIntervals GenomicRanges girafe Rsamtools HiTC HiTC

updated 11.8 years ago by Dan Tenenbaum ★ 8.2k • written 11.8 years ago by Wim Kreinen ▴ 100

votes

replies

993

views

Annotation convert genomeIntervals Annotation convert genomeIntervals

12.8 years ago delhomme@embl.de ★ 1.2k

votes

1.1k

views

genomeIntervals genomeIntervals

updated 13.7 years ago by Hervé Pagès 16k • written 13.7 years ago by Julien Gagneur ▴ 50

votes

replies

1.2k

views

Sequencing Annotation GO rtracklayer IRanges genomeIntervals Sequencing Annotation GO

14.9 years ago Robert Castelo ★ 3.4k

10 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

Awards • All