Re: https://github.com/nf-core/covid19 - nextflow pipeline

[Charles Plessy <plessy@debian.org>]

Hi Andreas,

Le Wed, Mar 25, 2020 at 11:36:27AM +0100, Andreas Tille a écrit :
> > 
> > https://github.com/nanoporetech/ - the nanopore is a prime tool for
> > covid-19
> 
> Hmmm, that github directory lists several tools but none with this
> description neither the name nanopore.  I've found a software named
> nanopore on Github here:

The Nanopore tools evolve fast, and most of them are not under a Free
license, but the following might be useful:

To convert old formats to new ones:
https://github.com/nanoporetech/ont_fast5_api

To demultiplex "barcoded" sequence reads:
https://github.com/nanoporetech/qcat

> > Also, this
> > runs into the missing bits of the popular r-cran-locfit package.
> 
> Charles, are you reading here?  We really need to push this issue
> forward.

I thought that the problem was solved since the package landed in
unstable and testing ?

https://packages.debian.org/sid/r-cran-locfit

Have a nice Sunday,

Charles

-- 
Charles Plessy                              Akano, Uruma, Okinawa, Japan
Debian Med packaging team         http://www.debian.org/devel/debian-med
Tooting from work,           https://mastodon.technology/@charles_plessy
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