amr
seq
amr | seq | |
---|---|---|
1 | 15 | |
242 | 634 | |
5.0% | - | |
7.1 | 0.7 | |
12 days ago | over 1 year ago | |
C++ | C++ | |
GNU General Public License v3.0 or later | Apache License 2.0 |
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Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
amr
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No antibiotic resistance genes in plasmidSPAdes assembly
https://github.com/ncbi/amr this tool will report the contig and coordinates for any AMR gene it detects in your assembly. If you want to know which genes are nearby you should also annotate your genome (with prokka for example) as the other response suggested
seq
- Bioinformatics programming language
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A Python-based programming language for high-performance computational genomics
> Seq is a Python-compatible language, and the vast majority of Python programs should work without any modifications
https://github.com/seq-lang/seq
- Seq – A programming language for computational genomics and bioinformatics
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Hacker News top posts: Sep 15, 2021
Seq: A programming language for high-performance computational genomics\ (17 comments)
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Seq: A programming language for high-performance computational genomics
They support both, and will deprecate Python 2 style soon.
https://github.com/seq-lang/seq/issues/223
What are some alternatives?
Nim - Nim is a statically typed compiled systems programming language. It combines successful concepts from mature languages like Python, Ada and Modula. Its design focuses on efficiency, expressiveness, and elegance (in that order of priority).
adam - ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.
edlib - Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
wyng-backup - Fast Time Machine-like backups for logical volumes & disk images
Biopython - Official git repository for Biopython (originally converted from CVS)
bowtie2 - A fast and sensitive gapped read aligner
seq-genomics - Coursera Bioinformatics / Stepik Genome Sequencing with seq-lang
qore - Qore Programming Language
poly - A Go package for engineering organisms.
bioconda-recipes - Conda recipes for the bioconda channel.
TensorComprehensions - A domain specific language to express machine learning workloads.
vg - tools for working with genome variation graphs