Bioconductor Predict coding

Showing : predict coding • reset

votes

1.5k

views

variantannotation predict coding locateVariants granges

8.1 years ago tony j • 0

votes

replies

1.4k

views

predict coding variantannotation

updated 10.3 years ago by Valerie Obenchain ★ 6.8k • written 10.3 years ago by luong.jeff • 0

votes

1.6k

views

snp variantannotation predict coding

10.5 years ago vakul.mohanty ▴ 20

vote

replies

3.2k

views

variantannotation predict coding

updated 10.7 years ago by Valerie Obenchain ★ 6.8k • written 10.7 years ago by Miss Agnieszka Aleksandra Golicz ▴ 40

votes

replies

2.0k

views

vcf predict coding save file VariantAnnotation

updated 11.2 years ago by Thomas Sandmann ▴ 90 • written 11.2 years ago by anastasiya-terskih ▴ 10

5 results • Page 1 of 1

Recent ...

Replies

Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150

Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?

Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k

BTW, I tested with no issue on MacOS ARM on our previous github issue.

Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k

The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…

Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Votes

C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

Awards • All

Popular Question to James W. MacDonald 68k