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## Problem description
Currently (version 0.2.0-beta2), `flye_end_repair.sh` is run after the assembly step to fix any potential issues with the region around the ends of circular contigs. At the end…
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Hello,
I'm really appreciative of the newick format that you recently introduced!
I think this is a bug in building the tree. As I'm working with the newick file, it appears the newick tree is m…
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when I run chromap, it got the error: Segmentation fault (core dumped) chromap --preset hic -r $contigsFasta -x contigs.index --remove-pcr-duplicates -1 $r1Reads -2 $r2Reads --SAM -o aligned.sam…
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Hi,
First, thank for you tools. I run the `biser` on a genome assembly with 25 chromosome-level scaffolds and 1983 short contigs (the longest contig is ~ 300kb and the shortest is ~2kb). The `biser` …
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* phold version: current git pull
* Python version: 3.11
* Operating System: Ubuntu 22.04
### Description
How much memory is phold supposed to use, and can you limit its memory use somehow?
…
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Hi Brian,
I am using PASA to annotate a genome assembly following the PASA tutorial. The genome is ~500 MB and resulted in 400 contigs. EVM ran successfully and outputted 33k genes (with evidence f…
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Dear all,
Could you activate links to assembled data?
Thank you!
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Thanks so much for your work in this tool and for this in advance - you guys are the best!
## Short description of the problem
Running `anvi-cluster-contigs` with `DASTool `or `Binsanity `as dri…
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I am assuming based on the documentation that the .extract_1.fa and .extract_2.fa are the ARG-like contigs for each sample but I wasn't sure. Can you confirm this, or tell me which files are the ARG-l…