Brendan Osberg

ImportError: cannot import name 'fetch_mldata' from 'sklearn.datasets'

10

I've been working my way through this book on OSX, and everything comes to a grinding halt on page 81 where it says: > The following code fetches the MNIST...

RNA event alignment shows T's rather than U's in model kmer

2

Hello. Thank you for your great work. I’ve found nanopolish to be an excellent research tool. My question relates to the “Model kmer” field in the event_align output; I am...

Thanks for creating this package. I've followed instructions [here](https://snakemake.github.io/snakemake-workflow-catalog/?usage=snakemake-workflows%2Frna-seq-star-deseq2) through to step 4, at which point when I try to run the workflow I get the following: ``` $snakemake --cores...

request for 'skip missing values' option in map

1

Thanks very much for contributing this excellent resource to the community. I've been using both `unionbedg` and `map` utilities, and I think both of these things would be much more...

apply previously run mask using .out file

1

From a previous execution of RepeatMasker, I have a file of the form `[genome].repeatmasker.out` I still have the original fasta file `[genome].fa`, and I would like to apply the mask...

Methylcaller alternatives to recommended MethylDackel

1

Thanks very much for providing bwa-meth to the community. The README recommends using MethylDackel for methylation calling/tabulation, etc., however MethylDackel has had a [critical error](https://github.com/dpryan79/MethylDackel/issues/99) leading to a seg-fault/core-dump which,...