Bioconductor Isoform

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2.4k

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limma isoform edgeR salmon R

updated 12 days ago by ATpoint ★ 4.6k • written 23 days ago by mohammedtoufiq91 ▴ 10

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507

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Isoform IsoformSwitchAnalyzeR

19 months ago Craig • 0

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803

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pacbio isoform

written 2.1 years ago by lhaiyan3 • 0

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2.7k

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RNASeqData isoform DESeq2

2.7 years ago • updated 2.6 years ago priyanka.m • 0

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1.6k

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isoform RNA-seq hisat2 stringtie ballgown

4.2 years ago ra711 • 0

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1.6k

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isoform deep sequencing voom

updated 4.4 years ago by Gordon Smyth 52k • written 4.4 years ago by Ina Hoeschele ▴ 620

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1.3k

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tximport isoform voom

updated 4.4 years ago by Gordon Smyth 52k • written 4.4 years ago by Ina Hoeschele ▴ 620

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1.5k

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cancer Isoform limma IsoformSwitchAnalyzeR

updated 5.2 years ago by k.vitting.seerup ▴ 120 • written 5.2 years ago by asmita • 0

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1.3k

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gene isoform quantification rna-seq

updated 5.3 years ago by swbarnes2 ★ 1.4k • written 5.3 years ago by angel.campos • 0

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1.5k

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isoformswitchanalyzer isoform differential isoform usage

written 6.0 years ago by A ▴ 40

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1.1k

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kallisto differential isoform usage isoform

7.1 years ago ilyco • 0

11 results • Page 1 of 1

Recent ...

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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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