Bioconductor Time series

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2.2k

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deseq2 time series time course

updated 3.7 years ago by Michael Love 42k • written 3.7 years ago by bsierieb ▴ 10

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672

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scRNA-seq time series

3.9 years ago Bogdan ▴ 670

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855

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deseq2 rnaseq repeated measures time series design formula

updated 4.3 years ago by Michael Love 42k • written 4.3 years ago by Dorien ▴ 10

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875

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transcriptomics gene expression time series plant biology circadian Job

4.6 years ago dezer ▴ 10

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1.5k

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limma microarray time series DEG paired

updated 4.6 years ago by Gordon Smyth 50k • written 4.6 years ago by kawess • 0

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2.0k

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deseq2 Time Series Gene Clustering LRT ATACseq

updated 5.2 years ago by Michael Love 42k • written 5.2 years ago by kaiser.karim • 0

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1.3k

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deseq2 time series remove batch effect

5.3 years ago Nicola • 0

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3.2k

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limma design model.matrix time series splines

updated 5.3 years ago by Aaron Lun ★ 28k • written 5.3 years ago by tleona3 • 0

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1.0k

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limma time series help

updated 5.4 years ago by Aaron Lun ★ 28k • written 5.4 years ago by rm1238 • 0

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1.3k

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deseq2 time series multiple factor design

updated 5.5 years ago by Michael Love 42k • written 5.5 years ago by Jane • 0

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1.8k

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rna-seq time series patient limma-voom

updated 5.7 years ago by Aaron Lun ★ 28k • written 5.7 years ago by aec ▴ 90

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3.2k

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deseq2 ruvseq spike-in time course time series

updated 6.4 years ago by davide risso ▴ 950 • written 6.4 years ago by staceyborrego ▴ 20

12 results • Page 1 of 1

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Comment: Ensembl plants at annotationHub? by Johannes Rainer ★ 2.0k

You can get the `EnsDb` EnsDb.Taestivum.v112.sqlite (for Ensembl 112/ ensemblgenomes 59) [here](https://www.dropbox.com/sh/msic0luivbldmb7/…

Comment: Errors in chromosome annotation-biomaRt by blackwidowzzz • 0

I recommend using a different dataset specific to your rat genome assembly version 8. You can search for available datasets within Ensembl …

Answer: Errors in chromosome annotation-biomaRt by James W. MacDonald 66k

If you are just using HGNC symbols for the lookup, and you are trying to get NCBI IDs, then I wouldn't use `biomaRt` because it's based on …

Comment: Help with ENmix readidat by James W. MacDonald 66k

Please don't add to posts from two years ago. Instead make a new post. Also, please read the help page for `readidat`. The only reason to …

Comment: LRT, more than two conditions and pairwise comparisons by James W. MacDonald 66k

In that case, probably easiest to subset to the groups being compared.

Votes

Answer: Error retrieving ensembl gene id using biomaRt...

Comment: LRT, more than two conditions and pairwise comparisons

Answer: Control group between 2 batches have different expression in RNAseq data

Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?

Comment: DESeq2- Mysterious interaction suppresses DEGs

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