Bioconductor Phytozome

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Zea_mays Attributes biomaRt Phytozome

updated 2.8 years ago by SK • 0 • written 2.9 years ago by s.k.tepler ▴ 10

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biomaRt getBM Phytozome Chlamydomonas

updated 4.7 years ago by Mike Smith ★ 6.6k • written 4.7 years ago by ytlin610 ▴ 10

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Biomart phytozome

4.7 years ago l.willianpacheco • 0

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biomaRT Rcurl phytozome

updated 5.5 years ago by Mike Smith ★ 6.6k • written 5.5 years ago by s.nielsen ▴ 20

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Answer: bioconductor packages on bioconda by James W. MacDonald 67k

The bioconda people are responsible for bioconda, so you should ask them if/when they are going to update.

Answer: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome by James W. MacDonald 67k

The default for `plotKaryotype` is to use hg19.

Comment: Is it possible to parallelise saveHDF5SummarizedExperiment by Stefano Mangiola ▴ 20

saveTileDBSummarizedExperiment would be awesome. I think we need performance for execution time and memory required to save.

Comment: Create Illmina bead summary data by Liu • 0

Hi! Yes, thank you! I completely agree. I am just curious about how these two files are processed with AVG_Gre and detection p-value. I am …

Answer: Epic v2 Annotation CpG_maf source? by James W. MacDonald 67k

Those all come from dbSNP by way of UCSC. [See here][1], particularly lines 114 and onward. Here is no MAF for a CpG. The MAF is for the…

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Appropriate use of the function treat of the limma package

Comment: Is it recommended to analyze different tissues together when using edgeR

Answer: Deseq2 res Function

Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification

Answer: ANOVA like approach of edgeR

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