Bioconductor DNA

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740

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DNA repeats

23 months ago me-nobody • 0

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995

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TFBSTools DNASeqData readFASTA DNA RStudio

updated 3.2 years ago by James W. MacDonald 67k • written 3.2 years ago by HELEN • 0

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1.3k

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software codon usage bias dna

updated 5.1 years ago by anamaria ▴ 10 • written 5.1 years ago by jol.espinoz ▴ 40

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732

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DNA alphabet

updated 5.8 years ago by James W. MacDonald 67k • written 5.8 years ago by fjia304 • 0

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2.1k

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decipher DNA biostrings

updated 7.0 years ago by Erik Wright ▴ 150 • written 7.0 years ago by reubenmcgregor88 • 0

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2.8k

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biostrings mask repeatmasker DNA

updated 3.9 years ago by ivantsers • 0 • written 7.1 years ago by beausoleilmo • 0

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1.5k

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ABI sequence DNA melting curve

updated 9.6 years ago by Hervé Pagès 16k • written 9.6 years ago by Prasanth ▴ 20

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Comment: Identifying potentially associated gene set to drug response using GSVA by coolmathforkids2 • 0

It is always helpful to see clear explanations and solutions for bioconductor related challenges. Posts like this make the community a valu…

Comment: minfi latest update for EPIC V2 chip by macdonaldfrench7286566 • 0

Yes, the most updated analysis for the EPIC V2 chip using the minfi package still involves using the annotations provided by jokergoo. *Th…

Answer: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Gordon Smyth 52k

To compute CPM values from edgeR: ``` y <- DGEList(counts = counts, samples = samples, genes = genes, group = samples$Disease_status) y <- …

Comment: edgeR + tximport: calcNormFactors and the usage of offsets by Gordon Smyth 52k

Follow the vignette. It explains how to call edgeR's cpm function to use the offsets.

Comment: edgeR + tximport: calcNormFactors and the usage of offsets by Andre • 0

But if i want to do another type of analysis like Wilcoxon/Mann-Whitney and want to incorporate salmon offset can i simply use the cpm func…

Votes

A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor

A: RNA-seq Normalisation - normalise all samples in experiment or only the ones use

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio

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