Bioconductor TFBSTools

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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 looping PFMatrixList PFMatrix bioconductor

7.0 years ago nathan.lawlor03 • 0

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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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815

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error TFBSTools R

2.5 years ago HELEN • 0

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754

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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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663

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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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TFBSTools FASTA RStudio

2.5 years ago HELEN • 0

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617

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TFBSTools RStudio R

2.5 years ago HELEN • 0

10 results • Page 1 of 1

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Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k

Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…

Comment: get BM error by James W. MacDonald 65k

I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…

Comment: get BM error by Fara • 0

Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…

Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 65k

That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…

Votes

Answer: get BM error

Answer: Use of negative binomial model for exponential decay rate estimation using DESeq

Comment: Different Shrunk Log2FC according with reference

Reproducibility issue with scran together with lapply and BiocParallel

C: SGSeq: moving toward diffex from SGSeq analysis

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