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Hey guys!
I am trying to run nucmer for a large genomes, I have installed the 64 bits version, but I always get this error after a while:
1: PREPARING DATA
2,3: RUNNING mummer AND CREATING CLUS…
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Is it possible to write alignments to file?
E.g. I want to process an existing .bam file by removing a part of the sequence. How do I do that?
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**Are you using the latest release?**
If you are not using the latest release of funannotate, please upgrade, if bug persists then report here.
v1.8.13
**Describe the bug**
A clear and concise des…
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I'm using Diamond clustering as part of an alignment strategy. This means I can run clustering over millions of files across a dataset. I run 32 instances of diamond in parallel. The CPU has 64c/128p …
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I always get the "Segmentation fault (core dumped)" error while trying global alignment with a reference sequence and target sequences. I tried this alignment with different numbers of target sequence…
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From the class notes website:
> For extra credit on Homework Assignment 3, add numbers to make longer alignments more readable something like this:
```
$ ruby semi-global.rb acalifornia2009.fasta ac…
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The `msa_hmm` step combines two alignments into one file. Both the ingroup and the outgroup are processed separately to figure out the revcom orientation and do the alignment. The files are then simpl…
rvosa updated
4 months ago
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Hi Jakob! This thing looks cool, thanks!
I recognize that it might not be a common usecase for `alen`, but I would routinely use it to browse alignments in an `ssh` session through `tmux` on macOS.…
taprs updated
4 months ago
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diamond version 2.0.8
The command:
diamond blastx -b4 -c1 -d $db -q $s -a $base -t temp/
====================================================
diamond v2.0.8.146 (C) Max Planck Society for the Adva…
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Hello,
Our lab has been using hifiasm for a number of genome assembly projects. We are using Nanopore reads (kit 14 chemistry, R10.4.1 flow cells) that have been error-corrected with PECAT or HERRO…