foldseek VS hh-suite

Compare foldseek vs hh-suite and see what are their differences.

foldseek

Foldseek enables fast and sensitive comparisons of large structure sets. (by steineggerlab)
protein-structure alignments Bioinformatics Clustering
Source Code
foldseek.com
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hh-suite

Remote protein homology detection suite. (by soedinglab)
Bioinformatics hh-suite hhblits Alignment sequence-search profile-search profile-profile-search Opensource CPP hhsearch hhpred protein-structure Simd viterbi
Source Code
bmcbioinformatics.biomedcentral.com
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foldseek hh-suite
1 2
649 501
7.7% 2.2%
9.3 0.0
6 days ago 9 months ago
C C
GNU General Public License v3.0 only 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.

foldseek

Posts with mentions or reviews of foldseek. We have used some of these posts to build our list of alternatives and similar projects.
  • AI predicts shape of nearly every known protein
    1 project | news.ycombinator.com | 28 Jul 2022
    "Some sophisticated applications of the expanded AlphaFold database might also depend on downloading its entire 23 terabyte contents, which won’t be feasible for many teams, Steinegger says. Cloud-based storage could also prove costly. Steinegger has co-developed a software tool called FoldSeek that can quickly find structurally similar proteins and which should be able to squash the AlphaFold data down considerably."

    [FoldSeek Search](https://search.foldseek.com/search)

    [Github:FoldSeek](https://github.com/steineggerlab/foldseek)

hh-suite

Posts with mentions or reviews of hh-suite. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2022-03-02.

What are some alternatives?

When comparing foldseek and hh-suite you can also consider the following projects:

bwa - Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite

DAGSfM - Distributed and Graph-based Structure from Motion. This project includes the official implementation of our Pattern Recognition 2020 paper: Graph-Based Parallel Large Scale Structure from Motion.

MethylDackel - A (mostly) universal methylation extractor for BS-seq experiments.

MooseFS - MooseFS – Open Source, Petabyte, Fault-Tolerant, Highly Performing, Scalable Network Distributed File System (Software-Defined Storage)

direct-io - Direct IO helpers for block devices and regular files on FreeBSD, Linux, macOS and Windows.

mars - Asynchronous Block-Level Storage Replication

cglm - 📽 Highly Optimized 2D / 3D Graphics Math (glm) for C

seqtk - Toolkit for processing sequences in FASTA/Q formats

foldseek vs bwa hh-suite vs MMseqs2 foldseek vs DAGSfM hh-suite vs MethylDackel foldseek vs MooseFS hh-suite vs direct-io foldseek vs mars hh-suite vs cglm foldseek vs seqtk