-
Hello, Anton.
We would like to apply this tool on our genome resequencing data obtained by Illumina novaseq 6000. Do you have any suggestion on how to calculate the read counts for each cell in WGS?…
-
## Description
From a gene count file, using the metadata describing taxonomy for each gene (for instance from Virgo taxonomy file generated by metagenedb), transform counts df into taxonomy df
…
-
Hey, I tried to apply Poppunk on MAGs. As no one has mentioned it before I wanted to ask if there is a problem with that. I know that sketching is regularly used with MAGs.
On my data, I get almos…
-
After installing either the latest version from git or source version v0.42.3 from http://pachterlab.github.io/kallisto/download.html on my 32-bit Linux (Debian), index building crashes:
~/Software/k…
-
What would be the best strategy to compare the genes proportion among different samples. can I directly compare tpm values or should I subsample the count values (e.g., KEGG abundance data) to the sam…
-
```
-- Starting 'meryl' concurrent execution on Thu Sep 24 06:37:11 2020 with 36253.066 GB free disk space (1 processes; 20 concurrently)
cd correction/0-mercounts
./meryl-process.sh 1 > …
-
How many novel Cornoavirus species in nature remain to be discovered? This is a fundamental biological question that we are uniquely positioned to answer. Estimating the number of things that nobody h…
-
Hi @ctb,
I ran `--track-abundance` with `sourmash gather`, and wasn't sure how to interpret the values. Should I be looking at `average_abund`?
On another note, for `--output-unassigned`, is it …
-
Hey, I'm wondering if there's a clean workaround to skipping processes in the main_AmrPlusPlusv2.nf.
I'm only interested in running rady samples with alignment to MEGAres as such skipping all the o…
-
I am running the metagenomics snakemake workflow and even though I only have 8 metagenomes that I'm trying to assemble individually, it's trying to do some of the steps 9 times.
Here's a screensho…