Bioconductor BioMart

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6.4k

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error lazy R biomaRt table

updated 28 days ago by juo5 • 0 • written 5 months ago by Abhishek ▴ 10

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1.1k

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biomaRT

updated 28 days ago by James W. MacDonald 65k • written 4.0 years ago by RJW63 • 0

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clusterProfiler OrgDb biomaRt Zea_mays

updated 14 hours ago by Guido Hooiveld ★ 3.9k • written 15 hours ago by sansan • 0

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688

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biomart rnaseq

written 5.2 years ago by jarod_v6@libero.it ▴ 40

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111

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biomaRt

updated 16 days ago by James W. MacDonald 65k • written 17 days ago by Reeya • 0

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Comment: Which input file is used for DGEList in EgdeR? by i.atanasoai • 0

Understood, Thank you very much for the reply, very kind.

Comment: Which input file is used for DGEList in EgdeR? by Michael Love 41k

"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k

These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…

Comment: DEG with low counts by Michael Love 41k

These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…

Comment: DESeq filtering specific to contrasts by Michael Love 41k

If the counts are too low it in one group then you can't make the comparison either way (whether they are filtered out or just under-powere…

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A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

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