-
Hi Team,
Appreciate if someone can advise me on this issue:
**Previous steps:**
1. SNP and COG association with fixed effects model
**Pyseer having issue:** K-mer association with mixed effec…
-
Hi there
I was running into some issues recently when I tried to assemble a small insect (250Mb) genome with Illumina (120x, PE 150bp) with ca 25x ONT 1D data. I am getting these buffer overflow is…
-
I like to combine different metagenome-assembled genomes (contigs) into one.
I tried to use miniasmwith:
```
cat all_genomes/*.fasta > x.fasta
minimap2 -x asm10 -t4 x.fasta x.fasta | gzip -…
-
# Please report
- [x] version of ABySS with `abyss-pe version`
`2.3.9`
- [x] distribution of Linux with `lsb_release -d`
`Rocky Linux release 8.10 (Green Obsidian)`
# Assembly error
…
-
Hi Hongzhe,
I tried to run your tool on a standard reference human genome data set (GRch37).
This is the command I used to run indexing process:
`./deBGA index -k 27 GRch37.fa `
First of a…
-
Hi VIni,
I keep getting this error message:
[Sat Jul 13 01:49:37 2024]
Error in rule concatenate_contigs:
jobid: 56
input: output/assembly/megahit/coassembly/coassembly.contigs_rename…
-
Here is an example: the y-axis is `hic.p_ctg` and the x-axis is `hic.hap1.p_ctg` or `hic.hap2.p_ctg`. Many primary contigs are break into several haplotype contigs, for exampe `ptg000020l`. The N50 dr…
-
Hello,
I have a couple of samples where we ran verkko 2.1 assemblies with no problem, but with verkko 2.2 they have errors on the hicPhasing step. Specifically, when I check the output of 8-hicPip…
-
Hello,
I gave spacegraphcats another go, and tried to run bits of the code separately so I can understand where things go wrong. This time it's running out of memory at the catlas building phase (s…
-
Dear nanopore devs,
I'm having issues getting mini_assemble to run on human (HG001/NA12978) data. I've successfully ran it on smaller assemblies before, but a ~30x human genome seems to be causing …