minimap2
cuetorials.com
minimap2 | cuetorials.com | |
---|---|---|
5 | 27 | |
1,688 | 113 | |
- | -0.9% | |
7.6 | 4.1 | |
10 days ago | about 1 month ago | |
C | CUE | |
GNU General Public License v3.0 or later | BSD 3-clause "New" or "Revised" License |
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minimap2
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Ask HN: Comment here about whatever you're passionate about at the moment
Interested as well! But the future is not so dark, things like e.g. https://github.com/lh3/minimap2 are a breath of fresh air.
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BLAST 10,000 genes?
No experience with this maybe try minimap2(https://github.com/lh3/minimap2) if this doesn't work fall back on blast/blat
- Truncating genome fastas to just overlapping regions
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Alignment of long reads to plasmid and generation of consensus sequence.
You can try minimap2 to align your long reads to your expected plasmid
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Questions about WGS mapping
It sounds like the mapping wasn't very good, you might want to try minimap2 as it is a newer algorithm.
cuetorials.com
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HCL: Toolkit for Structured Configuration Languages
I have a website I maintain, many people tell me it has helped them
https://cuetorials.com
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Ask HN: Comment here about whatever you're passionate about at the moment
CUE(lang), because devops & yaml engineering has gotten out of hand
I maintain https://cuetorials.com and am heading up the CUE sig-infra group for the time being
- That's a Lot of YAML
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Ask HN: Who needs vendors, and vendors, who needs customers?
If you need help with CUE(lang), we maintain https://cuetorials.com and have experience helping others adopt it at their companies
email is in my HN profile, same handle on GitHub and X
- Learn you some CUE for a great good
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Ask HN: Which Python or Rust-based static site generators to use as of 2023?
If you are more focused on the devops part, and not implementing a static site generator, then go with Python. For our static sites we use Hugo + GH Actions + Kubernetes (since we have a cluster anyway). There is not really any code involved here (example: https://github.com/hofstadter-io/cuetorials.com)
I'm personally interested to try https://docs.dagger.io/sdk/python/ for something. I used the CUE sdk, but it is effectively deprecated at this point. I use a mix of base, make, python, and CUE fro most devops / devex stuff now. Dagger makes it so local & CI stuff runs the same.
- Cue Wins
- Ask HN: Do you have something you continually work on for years?
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Ask HN: How to find the right tech angel investor for new programming platform?
yup, I'm betting the proverbial ranch on CUE :]
I also maintain https://cuetorials.com
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hof: The High Code Framework (low-code for devs), a flexible data modeling & code generation system
I also maintain https://cuetorials.com, bet the farm on CUE or something like that :]
What are some alternatives?
bwa-mem2 - The next version of bwa-mem
vector - A high-performance observability data pipeline.
seqtk - Toolkit for processing sequences in FASTA/Q formats
juicefs - JuiceFS is a distributed POSIX file system built on top of Redis and S3.
seqstats - Quick summary statistics on fasta/fastq(.gz) files
cue - The home of the CUE language! Validate and define text-based and dynamic configuration
slivar - genetic variant expressions, annotation, and filtering for great good.
cue - CUE has moved to https://github.com/cue-lang/cue
MethylDackel - A (mostly) universal methylation extractor for BS-seq experiments.
hof - Framework that joins data models, schemas, code generation, and a task engine. Language and technology agnostic.
bwa-mem2 - The next version of bwa-mem
VuePress - 📝 Minimalistic Vue-powered static site generator