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Hi,
The Typical Workflow of README.md suggested that reference (contigs) may be splitted before mapping hiC reads. I assume later on during `mkmap`, the fragmented reference will be used instead of…
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We need to figure out how we want to implement metagenome assembly. The discussion needs to be divided into several parts:
1. What assembler(s) we want to use
2. How to make the Snakemake technica…
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Hi there,
In running `LRBinner` under default settings on an ONT metagenomic assembly I'm getting the following error - any idea of what's going on there?
I'm guessing that in finding no bins fr…
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Hi,
I run into the following error running atlas run genomes (after qc and assembly):
> [2019-06-07 18:35 CRITICAL] Command 'snakemake --snakefile /data10/programs/bin/anaconda2/lib/python3.6/si…
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Hi,
I created a tsv file with nitrogen fixation KO's, when I run the classify command I get the following error-
/home/mcs/miniconda3/envs/enrichm-0.5.0/bin/enrichm classify **--output** /home/mcs…
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## Description of the bug
Running MAG on paired files produces the following error:
`Missing output file(s) MetaBAT2/*.fa expected by process MAG:METABAT2_BINNING:METABAT2 (MEGAHIT-BioIVT_panc9_2-5…
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Hello! I'm only a beginner in bioinformatics. As I am writing my review, I came across ATLAS and it's perfect for my study. I already have metagenome contigs (fasta files), but i'm not sure how I can …
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Hi!
I'm just starting coding nextflow, and couldn't find an answer/example for my specific problem, but apologies if I miss it. I want to write a pipeline for metagenomes binning (and some other fea…
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Good day
We spoke recently and you helped me get my data on to my windows so that I could R it off my computer. It started running but not for long. I now get an issue as it is saying files are no…
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This is a question more than an issue. In previous conversations in Slack @skrakau helped me to understand the rationale of the `bowtie2` step (Thank you @skrakau!) In particular, she referred me to h…