Peregrine
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cschin
Peregrine: Fast Genome Assembler Using SHIMMER Index
Hello, I am trying to run the Peregrine on CCS reads and keep getting following error message. Not sure what is the issue. Here is the command that is used,...
Hi, After finishing the assembly should I run [Racon](https://github.com/isovic/racon) and then [Pilon](https://github.com/broadinstitute/pilon)? Thank you in advance, Michal
I have the same issue as the one mentioned in #10 Do you know what could cause this?
Hi: Error in the 2-ovlp stage. Several of the chunks finish successfully (14 of 24), and several of them (10 of 24) fail as per the attached logs. I'm running...
Hi, I am exploring using Peregrine with some Illumina corrected single molecule reads (>99% ID to Illumina reference). Sequenced to ~ 250x. I was wondering if and what the correlation...
Hi Jason, With the release of networkx 2.4 the syntax ```G.node``` is removed in favor of ```G.nodes``` (https://networkx.github.io/documentation/stable/release/release_2.4.html), and running Peregrine with this version of networkx results in the following...
@cschin could you show some downstream best practise ? like polish by illumina reads or connect ctg to scaffolds? _Originally posted by @huangl07 in https://github.com/cschin/Peregrine/issues/5#issuecomment-519759475_
For those users that are primarily interested in running Peregrine and mainly tweaking hyperparameters, it would be helpful to have a 'hello world' runbook that walks through setting up the...
When I used your Dockerfile to build docker image. I got the following error or warning messages: ==> WARNING: A newer version of conda exists.
I'm trying to run an assembly of a human genome with ~30x coverage with Nanopore reads. We're primarily running r5.24xlarge instances on Amazon, which have 96 cores and 768Gb of...
