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Writing a biom (JSON) file using biomformat package
biomformat
json
5.2 years ago
grp2009
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phyloseq biom json format conversion needed to hdf5 format for qiime
biom
json
hdf5
qiime
phyloseq
updated 5.5 years ago by
Bernd Fischer
▴ 550 • written 5.5 years ago by
newmanss
• 0
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Comment: Ensembl plants at annotationHub?
by
karenserrano
• 0
Hi Johannes, Could I request the same EnsDb creation for Medicago truncatula? Thank you very much, Karen
Answer: EnrichGO not working with db created from annotationhub
by
Guido Hooiveld
★ 3.2k
Did you notice the first message that was returned after you ran `enrichGO()`? Thus: `--> No gene can be mapped....` This basically means…
Comment: DiffBind GreyListChIP error: Error: BiocParallel errors
by
ksong
• 0
Hello my friends, I have exactly the same issue. May I ask if you have already solve this problem? I have tried `library(BiocParallel) regi…
Comment: cellCounts() function floating point error
by
Wei Shi
★ 3.3k
Yes we are currently working on generating a small example for cellCounts.
Comment: Separate exogenous from endogenous transcripts using Salmon RNAseq DTU
by
ksong
• 0
Hi Dr Sudbery, yes I found looking at the coverage in IGV helps a lot. I did find some differences between CDS and UTR and between samples.…
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Comment: Separate exogenous from endogenous transcripts using Salmon RNAseq DTU
C: Appropriate pre-processing pipeline for Human Transcriptome Array HTA 2.0 with o
Comment: Diffbind dba$binding slot finding Chr21 for an MM10 dataset
Answer: Handling NA values in limma's voom design matrix
Answer: Handling NA values in limma's voom design matrix
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