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?

See my answer here:

A: How do I create BSgenome Bos_taurus_UMD3.1?

H.