Bioconductor TFBSTools

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tfbstools

updated 8.9 years ago by Ge Tan ▴ 20 • written 9.1 years ago by franceskrussell • 0

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tfbstools jaspar

updated 8.5 years ago by Ge Tan ▴ 20 • written 8.6 years ago by JasonLouisStein • 0

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bioconductor tfbstools

updated 7.5 years ago by Ge Tan ▴ 20 • written 7.5 years ago by laurabuggiotti • 0

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TFBSTools looping PFMatrixList PFMatrix bioconductor

7.0 years ago nathan.lawlor03 • 0

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pwm tfbstools jaspar

updated 6.6 years ago by Ge Tan ▴ 20 • written 6.6 years ago by chrisclarkson100 ▴ 50

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TFBSTools R forloop

updated 2.5 years ago by onlineclasshelpnow • 0 • written 2.5 years ago by HELEN • 0

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error TFBSTools R

2.5 years ago HELEN • 0

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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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TFBSTools RStudio R

2.5 years ago HELEN • 0

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TFBSTools FASTA RStudio

2.5 years ago HELEN • 0

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Comment: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k

But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…

Comment: log2FoldChange value is way too different when compared with counts(dds) by HAK • 0

Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by ATpoint ★ 4.1k

Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…

Comment: Store output of matchPWM() by James W. MacDonald 65k

Here's a self contained reproducible example, using part of the example in `?matchPWM` ``` > library(Biostrings) > data(HNF4alpha) > libr…

Comment: DEseq2 coefficient by JKim • 0

Hi Dr. Love, I'm sorry to ask another question to my old post. If the design isn't balanced, the interpretation of coefficients will be…

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SPIA plotP giving error

Answer: Fold change calculation in Diffbind vs. DESEQ2?

C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB

C: Extremely big genes in annotation TxDb packages

Make custom Txdb class objects from Txdb

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