Bioconductor Splicing

Showing : splicing • reset

votes

replies

2.6k

views

sgseq splicing alternative splicing

updated 8.2 years ago by Leonard Goldstein ▴ 180 • written 8.2 years ago by vakul.mohanty ▴ 10

votes

replies

2.2k

views

edger normalization differential exon usage splicing

updated 3.5 years ago by Yunshun Chen ▴ 840 • written 3.5 years ago by oakhamwolf • 0

vote

replies

2.1k

views

SGSeq analyzeFeatures Splicing

9.4 years ago • updated 9.3 years ago Paolo Guarnieri ▴ 20

vote

replies

1.7k

views

microarray splicing

updated 8.2 years ago by Sonika Tyagi ▴ 20 • written 9.5 years ago by gv ▴ 40

votes

replies

1.7k

views

deseq2 splicing

updated 6.0 years ago by Michael Love 41k • written 6.0 years ago by yannickwurm • 0

vote

replies

1.5k

views

genomicalignments splicing coverage

updated 4.5 years ago by Michael Lawrence ★ 11k • written 7.1 years ago by rasi1983 ▴ 10

vote

replies

1.5k

views

DRIMSeq splicing differential isoform usage

updated 7.2 years ago by Gosia Nowicka ▴ 90 • written 7.2 years ago by kristoffer.vittingseerup ▴ 20

votes

replies

1.5k

views

DEXSeq splicing python SAM

8.5 years ago Fiona ▴ 70

votes

replies

1.1k

views

DEXSeq Splicing Exon Usage

4.2 years ago gunjan.dikshit • 0

votes

1.1k

views

ciri splicing splicesites

updated 4.2 years ago by lhddiallo • 0 • written 5.9 years ago by csijst • 0

votes

880

views

dexseq splicing sqtl qtl

updated 5.2 years ago by Alejandro Reyes ★ 1.9k • written 5.3 years ago by rtunney2 • 0

votes

823

views

splicing Exon featureCounts subread DEXSeq

23 months ago NIK • 0

votes

818

views

junctionseq splicing RNAseq DEXSeq

4.4 years ago stuart ▴ 10

votes

replies

678

views

psichomics SUPPA Splicing Alternative Splicing Retained Introns

3.5 years ago noahhelton98 ▴ 20

votes

491

views

transcriptome splicing assembly

updated 17 months ago by James W. MacDonald 65k • written 17 months ago by Marianna ▴ 20

votes

216

views

splicing limma edgeR

updated 4 weeks ago by Gordon Smyth 50k • written 4 weeks ago by scoops_streams_06 • 0

16 results • Page 1 of 1

Recent ...

Replies

Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0

Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k

Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0

Hello James, Thank you very much for your answer and taking the time to read my post. I understand your remark, but isn't the approach o…

Comment: PCA plot suggestions by JKim • 0

cross post: https://www.biostars.org/p/9593486/

Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k

You cannot correct for technical variability due to batch if samples are nested in batch. The technical and biological differences are comp…

Votes

Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2

Answer: Use of negative binomial model for exponential decay rate estimation using DESeq

C: null model and DEXSeqDataSet object in DEXSEQ

A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?

A: How to explain how DESeq2 works to someone with zero bioinformatics background?

Awards • All

Scholar to James W. MacDonald 65k

Supporter to JKim • 0