seqan3
The modern C++ library for sequence analysis. Contains version 3 of the library and API docs. (by seqan)
diamond
Accelerated BLAST compatible local sequence aligner. (by bbuchfink)
seqan3 | diamond | |
---|---|---|
1 | 3 | |
389 | 960 | |
1.3% | - | |
8.9 | 6.3 | |
about 2 months ago | 3 months ago | |
C++ | C++ | |
GNU General Public License v3.0 or later | GNU General Public License v3.0 only |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
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.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
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.
seqan3
Posts with mentions or reviews of seqan3.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2021-10-26.
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Hardcore metaprogramming in the wild
The SeqAn bioinformatics algorithms library includes quite advanced TMP. SeqAn basically provides an object oriented library of algorithms, but with compile-time (rather than runtime) dispatch. In other words, it implements compile-time OOP.
diamond
Posts with mentions or reviews of diamond.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-05-12.
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comparing the similarity between a set of protein sequences
Diamond (https://github.com/bbuchfink/diamond) might help. It has a protein sequence clustering option. You could cluster your sequences and then take the centroids of each cluster. Vary the BLAST parameters to increase/decrease the numbers of clusters.
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which database is best to use on BLAST to identify an unknown protein?
What I usually do is the DIAMOND search (https://github.com/bbuchfink/diamond) on UniRef (50/90) database.
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someone remotely helped me to download and execute this file called a diamond.exe from the following link: https://github.com/bbuchfink/diamond Windows said it could be unsafe so I disabled Windows Defender and pressed run on it but it didn't do anything, is this a virus is it safe?
someone remotely helped me to download and execute this file called a diamond.exe from the following link: https://github.com/bbuchfink/diamond Windows said it could be unsafe so I disabled Windows Defender and pressed run on it but it didn't do anything, is this a virus is it safe?
What are some alternatives?
When comparing seqan3 and diamond you can also consider the following projects:
SeqAn - SeqAn's official repository.
Biopython - Official git repository for Biopython (originally converted from CVS)
vif - Easy, robust, and fast numerics in C++.
json_struct - json_struct is a single header only C++ library for parsing JSON directly to C++ structs and vice versa
eventpp - Event Dispatcher and callback list for C++
cpp-sort - Sorting algorithms & related tools for C++14
tight_pair - A compressed pair for C++17