Bioconductor Biomartr

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getGFF NCBI biomartr biomaRt

3.7 years ago Matan G. ▴ 60

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GO biomartr annotation ensemble fungi

updated 4.0 years ago by James W. MacDonald 68k • written 4.0 years ago by Bettina • 0

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901

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biomartr Bioconducter

5.8 years ago Jitendra ▴ 10

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Genbank biomartr Genomic sequences

6.9 years ago peter.durr • 0

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biomart biomartr

updated 6.9 years ago by James W. MacDonald 68k • written 6.9 years ago by stephen.williams ▴ 10

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Comment: error in ChAMP loading file by janwilseo • 0

Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)

Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k

Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…

Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis by donnycrimson • 0

One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…

Comment: DESeq2 Design controlling for gender by donnycrimson • 0

On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…

Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list' by donnycrimson • 0

Have you considered streamlining how you handle data input to mitigate these issues. It might help to define the parameters more strictly …

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remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline

How to remove X & Y chromosome genes from RNAseq data

Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?

A: Unbalanced experiment with multiple samples from each patient.

A: Understanding contrasts limma

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