Colin Davenport

indexcov: usage with long reads ?

1

Hi, would you expect this to work for long reads ? The scaling looks great in your png example, with most values around 1. I see most values are low...

mfsmaster stop fails due to lack of hard disk space

9

I had problems where `sudo mfsmaster stop` fails due to lack of local hard disk space (my bad) on a tiny VM, and cannot then be stopped. Just a warning...

No package 'freetype2' found

9

The error ``` configure: error: Package requirements (freetype2) were not met: No package 'freetype2' found ``` could be solved on Ubuntu 20.04 with ` sudo apt install libfreetype6-dev `

getting pre trained models

7

If the models download fails is there a wget or similar command to work around this ? **If this directory only contains configs then please run bonito download --models.** Thanks

prefix too long

8

I have an avx512 processor and get this. hpc :/mnt/ngsnfs/tools/bwa-mem2$ bwa-mem2 ERROR: prefix is too long! Does it mean the path prefix to the path to bwa-mem2 OR too many...

Installation Ubuntu 20.04 R4.1

1

Hi, While the file is useful, it is based on older R 3.4 I believe and a debian distro. https://github.com/velocyto-team/velocyto.R/blob/master/dockers/debian9/Dockerfile On Ubuntu 20.04 I used this (packages modified and should...

Feature request: getfasta extract name or ID from GFF3 attributes field

5

Hi, thanks for a great package. With the getfasta tool, the -name option appears to only refer to the name column from an input BED file. It would be great...

Hi, just installed the Galaxy repo for this - thanks. I noticed a few typos and thought I'd mention them here since I don't know where to find the galaxy...