-
Just an idea. It would be nice if scaffolds/contigs could be annotated by if they are connected or not in the assembly graph.
If the assembler outputs a .gfa, [gfatools](https://github.com/lh3/gf…
-
Hi,
I'm running into an issue with assemble_clusters.dbi getting this error:
`* [Mon Jan 24 12:55:33 2022] Running CMD: /Users/jadem/Documents/scripts/PASApipeline/scripts/assemble_clusters.dbi -…
-
## **Overview**
From internal testing, [wtdbg2](https://github.com/ruanjue/wtdbg2) (long read SV assembler) performs well for assembly of breakpoints, something that MAVIS must implement.
The fol…
-
# Critical Assesment of Metagenome Interpretation (CAMI)
CAMI is an open challenge for meta-omic's programs where the developers of said programs test out their programs on multiple different dataset…
-
**Are you using the latest release?**
Yes, installed fun annotate via conda (v1.7.4)
**Describe the bug**
While the test run (funannotate test -t all --cpus 12) ran without problem, I run into tr…
AlWa1 updated
2 years ago
-
Hi,
I was using masurca to assemble a genome. Unfortunately, I got an error which I cannot fix, can you please help to fix it.
cat: write error: Broken pipe
mkdir: cannot create directory `CA/f…
-
Hi Ryan,
I'm trying to finish some mitochondrial genomes that have initially been assembled from PacBio reads with Canu. The Canu assemblies give me a single contig, but almost always fail to circu…
-
I'm preparing to analyze shotgun genomic data for paralogs of functional genes using aTRAM 2.0 (automated target restricted assembly method). This program assembles genes from WGS reads, using a BLAST…
-
Hi,
I have been tried to use BASE assembler to get contigs from some 251bp HiSeq Illumina data, but after preparing the 2BWT files using 2bwt_builder_cpu and AsiicBWT2BWT, making a 2bwt_index file…
-
Hi Seb,
I was recently reviewing some work from a lab where a student had diligently sought to find the best Kmer value for a Ray assembly across a large number of genomes. Despite their efforts in…