Bioconductor Dna

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472

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DNA repeats

14 months ago me-nobody • 0

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742

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TFBSTools DNASeqData readFASTA DNA RStudio

updated 2.5 years ago by James W. MacDonald 65k • written 2.5 years ago by HELEN • 0

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1.1k

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software codon usage bias dna

updated 4.4 years ago by anamaria ▴ 10 • written 4.4 years ago by jol.espinoz ▴ 40

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590

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DNA alphabet

updated 5.1 years ago by James W. MacDonald 65k • written 5.1 years ago by fjia304 • 0

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1.8k

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decipher DNA biostrings

updated 6.3 years ago by Erik Wright ▴ 150 • written 6.3 years ago by reubenmcgregor88 • 0

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2.5k

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biostrings mask repeatmasker DNA

updated 3.2 years ago by ivantsers • 0 • written 6.4 years ago by beausoleilmo • 0

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1.3k

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ABI sequence DNA melting curve

updated 8.9 years ago by Hervé Pagès 16k • written 8.9 years ago by Prasanth ▴ 20

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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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Install/Switch between multiple versions of R, Rstudio, and Bioconductor

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

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