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Question: Error from BSgenome forge using .2bit file
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gravatar for mbk0asis
3.7 years ago by
mbk0asis0
Korea, Republic Of
mbk0asis0 wrote:

Hi.

I'm trying to build a custom bovine BSgenome using NCBI UMD3.1.1.

I converted 'genome.fa' to 'genome.2bit' using 'faToTwoBit' from UCSC.

In R,

> library(BSgenome)
> forgeBSgenomeDataPkg("/PATH/TO/genome.2bit")
Error in substr(lines, 1L, 1L) : invalid multibyte string at '<f2>x'
In addition: There were 50 or more warnings (use warnings() to see the first 50)

Does it mean that the 2bit file have some problem?

 

 

ADD COMMENTlink modified 3.7 years ago by Hervé Pagès ♦♦ 13k • written 3.7 years ago by mbk0asis0
0
gravatar for Hervé Pagès
3.7 years ago by
Hervé Pagès ♦♦ 13k
United States
Hervé Pagès ♦♦ 13k wrote:

See my answer here:

A: How do I create BSgenome Bos_taurus_UMD3.1?

H.

ADD COMMENTlink written 3.7 years ago by Hervé Pagès ♦♦ 13k
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