Bioconductor CDS

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2.0k

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txdb granges cds orf R

updated 6.5 years ago by James W. MacDonald 67k • written 6.5 years ago by q.thomas • 0

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1.7k

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Annotatr CDS Exon UTR

updated 6.9 years ago by rcavalca ▴ 140 • written 6.9 years ago by xie186 • 0

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1.8k

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genomeintervals UTRs exons CDS GenomicRanges

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

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2.2k

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biomart bioconductor grangeslist cds ribosome profiling

updated 7.6 years ago by Hervé Pagès 16k • written 7.6 years ago by Walter F. Baumann ▴ 10

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2.9k

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genomicfeatures txdb.hsapiens.ucsc.hg19.knowngene cds

8.3 years ago madsheilskov ▴ 10

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2.1k

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cds

9.0 years ago KB ▴ 50

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2.5k

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genomicfeatures genomicranges cds overlap

updated 9.0 years ago by Michael Lawrence ★ 11k • written 9.0 years ago by madsheilskov ▴ 10

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1.5k

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genomicfeatures genomicranges cds overlap

updated 3.1 years ago by balajee • 0 • written 9.0 years ago by madsheilskov ▴ 10

8 results • Page 1 of 1

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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40

Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …

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…

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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