Ecosyste.ms: Packages

An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.

crates.io "bioinformatics" keyword

lorikeet-genome 0.8.2
Strain resolver and variant caller via local reassembly for metagenomics
1 version - Latest release: 6 months ago - 266 downloads total - 64 stars on GitHub - 1 maintainer
alpha-rra 0.1.5
An implementation of the Alpha-RRA algorithm for p-value aggregation on groups of genes
5 versions - Latest release: over 1 year ago - 1 dependent package - 2.23 thousand downloads total - 1 stars on GitHub - 1 maintainer
crast 1.0.4
CRAST, Context RNA Alignment Search Tool
5 versions - Latest release: almost 7 years ago - 3.51 thousand downloads total - 1 maintainer
chiral-operator 0.1.2
Operators f Chiral: An All-in-One Data Processing Tool
3 versions - Latest release: over 1 year ago - 2 dependent packages - 1 dependent repositories - 1.39 thousand downloads total - 0 stars on GitHub - 1 maintainer
tarnished 0.4.0
Very simple CLI app for testing the percent of nucleotides in FASTA files
4 versions - Latest release: over 1 year ago - 1.38 thousand downloads total - 0 stars on GitHub - 1 maintainer
chiral-computing-unit 0.1.2
Computing Units of Chiral: An All-in-One Data Processing Tool
2 versions - Latest release: over 1 year ago - 635 downloads total - 0 stars on GitHub - 1 maintainer
rust-parallelfastx 0.1.1
Parallel iteration of FASTA/FASTQ files, for when sequence order doesn't matter but speed does
2 versions - Latest release: over 1 year ago - 688 downloads total - 1 maintainer
segul 0.21.3
An ultrafast and memory efficient tool for phylogenomics
59 versions - Latest release: 8 days ago - 1 dependent package - 17.9 thousand downloads total - 13 stars on GitHub - 1 maintainer
minced
A parser for the output of the MinCED CRISPR array annotation tool
1 version - Latest release: 8 days ago - 253 downloads total - 0 stars on GitHub - 1 maintainer
sgcount 0.1.32
A fast and flexible sgRNA counter
14 versions - Latest release: 3 months ago - 4 thousand downloads total - 8 stars on GitHub - 1 maintainer
minced-parser 2.0.0
A parser for the output of the MinCED CRISPR array annotation tool
2 versions - Latest release: over 1 year ago - 605 downloads total - 0 stars on GitHub - 1 maintainer
bio-seq 0.12.4
Bit packed and well-typed biological sequences
13 versions - Latest release: 8 days ago - 1 dependent package - 3.41 thousand downloads total - 16 stars on GitHub - 1 maintainer
bio-streams 0.3.1
Streaming bioinformatics data types
2 versions - Latest release: 8 days ago - 184 downloads total - 5 stars on GitHub - 1 maintainer
cgt_bacpop 0.1.0
Label core and rare genes in pangenome dataa
1 version - Latest release: 4 months ago - 309 downloads total - 2 stars on GitHub - 1 maintainer
bed-reader 1.0.2
Read and write the PLINK BED format, simply and efficiently.
29 versions - Latest release: 4 months ago - 9.69 thousand downloads total - 67 stars on GitHub - 1 maintainer
genomicsqlite 0.9.4
Genomics Extension for SQLite
16 versions - Latest release: about 1 year ago - 6.57 thousand downloads total - 152 stars on GitHub - 1 maintainer
ontime 0.3.1
Extract subsets of ONT (Nanopore) reads based on time
7 versions - Latest release: 3 months ago - 1.99 thousand downloads total - 16 stars on GitHub - 1 maintainer
freesasa-rs 0.1.3
Rust (safe) bindings for the freesasa library
1 version - Latest release: about 1 month ago - 207 downloads total - 5 stars on GitHub - 1 maintainer
skani 0.1.1
skani is a fast tool for calculating ANI between metagenomic sequences, such as metagenome-assemb...
2 versions - Latest release: about 1 year ago - 1 dependent package - 1 dependent repositories - 1.34 thousand downloads total - 127 stars on GitHub - 1 maintainer
Top 7.8% on crates.io
needletail 0.5.1
FASTX parsing and k-mer methods
15 versions - Latest release: about 1 year ago - 40 dependent packages - 24 dependent repositories - 181 thousand downloads total - 126 stars on GitHub - 4 maintainers
lightmotif-io 0.6.0
Motif parsers implementation for the lightmotif crate.
1 version - Latest release: 5 months ago - 2 dependent packages - 799 downloads total - 34 stars on GitHub - 1 maintainer
lightmotif 0.6.0
A lightweight platform-accelerated library for biological motif scanning using position weight ma...
8 versions - Latest release: 5 months ago - 5 dependent packages - 4.05 thousand downloads total - 34 stars on GitHub - 1 maintainer
distmat 0.3.0
Distance matrix data types and file formats
3 versions - Latest release: over 1 year ago - 1 dependent package - 985 downloads total - 0 stars on GitHub - 1 maintainer
census-proteomics 0.3.3
Rust library for working with proteomics data quantified by the Census algorithm
12 versions - Latest release: over 3 years ago - 1 dependent package - 1 dependent repositories - 6.9 thousand downloads total - 3 stars on GitHub - 1 maintainer
scispeak 0.1.0
A tool for converting Sci-RNA-Seq3 files to 10X Genomics compatible FASTQ files.
1 version - Latest release: 8 months ago - 345 downloads total - 0 stars on GitHub - 1 maintainer
taxonomy 0.10.0
Routines for loading, saving, and manipulating taxonomic trees
17 versions - Latest release: over 1 year ago - 1 dependent package - 8.78 thousand downloads total - 32 stars on GitHub - 4 maintainers
bed2gff 0.1.5
A Rust BED-to-GFF3 parallel translator
6 versions - Latest release: about 1 month ago - 1.83 thousand downloads total - 6 stars on GitHub - 1 maintainer
bed2gtf 1.9.2
A fast and memory efficient BED to GTF converter
12 versions - Latest release: about 1 month ago - 3.52 thousand downloads total - 8 stars on GitHub - 1 maintainer
omnitigs 5.0.1
Omnitig-related algorithms
33 versions - Latest release: 10 months ago - 1 dependent repositories - 10.2 thousand downloads total - 0 stars on GitHub - 1 maintainer
samcomp 0.1.3
A comparison tool for Sequence Alignment/Map files.
4 versions - Latest release: almost 2 years ago - 1.18 thousand downloads total - 0 stars on GitHub - 1 maintainer
rm-frust5-api 0.0.3
A rust wrapper of the HDF5 crate for handling Oxford Nanopore Technologies FAST5 files.
3 versions - Latest release: about 2 years ago - 1.12 thousand downloads total - 0 stars on GitHub - 1 maintainer
read-structure 0.2.0 💰
Library for parsing and working with read structure descriptions
3 versions - Latest release: 12 months ago - 1 dependent package - 2 dependent repositories - 2.01 thousand downloads total - 3 stars on GitHub - 2 maintainers
pooled-writer 0.3.0 💰
Library for using N threads to write to M compressed files/writers.
2 versions - Latest release: over 1 year ago - 1 dependent package - 2 dependent repositories - 1.91 thousand downloads total - 4 stars on GitHub - 3 maintainers
bgzf 0.2.0 💰
Utility library for working with explicitly BGZF compressed data
1 version - Latest release: about 2 years ago - 1 dependent package - 3 dependent repositories - 2.16 thousand downloads total - 2 stars on GitHub - 3 maintainers
crussmap 1.0.1
crussmap is a faster tool to convert genome coordinates between difference reference assemblies. ...
2 versions - Latest release: about 1 year ago - 576 downloads total - 9 stars on GitHub - 1 maintainer
rustynuc 0.3.0
Quick analysis of pileups for likely 8-oxoG locations
2 versions - Latest release: over 3 years ago - 1.07 thousand downloads total - 0 stars on GitHub - 1 maintainer
nafcodec 0.2.0
Rust coder/decoder for Nucleotide Archive Format (NAF) files.
3 versions - Latest release: about 1 month ago - 1 dependent package - 1.01 thousand downloads total - 3 stars on GitHub - 1 maintainer
nafcodec-py 0.2.0
PyO3 bindings and Python interface to the nafcodec crate.
2 versions - Latest release: about 1 month ago - 547 downloads total - 3 stars on GitHub - 1 maintainer
sa-ord 0.0.1
Pure Rust implementation of the Suffix Array by Induced Sorting algorithm.
1 version - Latest release: over 1 year ago - 365 downloads total - 3 stars on GitHub - 1 maintainer
ring_api 0.1.0
Strongly-typed client for the RING HTTP API
1 version - Latest release: almost 5 years ago - 710 downloads total - 2 stars on GitHub - 1 maintainer
slow5 0.11.0
Library for interacting with slow5
13 versions - Latest release: 9 months ago - 4.1 thousand downloads total - 9 stars on GitHub - 1 maintainer
slow5lib-sys 0.9.1+slow5lib.1.1.0
Low-level bindings to the slow5lib C library
12 versions - Latest release: 2 months ago - 1 dependent package - 1 dependent repositories - 4.82 thousand downloads total - 9 stars on GitHub - 1 maintainer
aa-name 0.1.4
Basic enum for amino acid names.
1 version - Latest release: over 3 years ago - 1 dependent package - 1.23 thousand downloads total - 2 stars on GitHub - 1 maintainer
aa_similarity 0.1.0
Substitution matrices for use in protein sequence analysis and alignment.
1 version - Latest release: over 3 years ago - 737 downloads total - 2 stars on GitHub - 1 maintainer
syncmers 0.1.5
Rust library for finding syncmers
5 versions - Latest release: over 1 year ago - 1 dependent package - 2.16 thousand downloads total - 5 stars on GitHub - 1 maintainer
bamkit 0.2.0
bamkit: a simple program for bam file manipulation
2 versions - Latest release: over 1 year ago - 638 downloads total - 0 stars on GitHub - 1 maintainer
entrez-rs 0.1.4
Rust wrapper for the Entrez API
6 versions - Latest release: over 1 year ago - 2.29 thousand downloads total - 15 stars on GitHub - 1 maintainer
variantkey 0.1.0
Pure rust implementation of variantkey
1 version - Latest release: over 3 years ago - 502 downloads total - 0 stars on GitHub - 1 maintainer
compact-genome 2.1.1
Representation of genomes
31 versions - Latest release: 10 months ago - 1 dependent package - 2 dependent repositories - 13.3 thousand downloads total - 1 stars on GitHub - 1 maintainer
rumi 0.2.1
PCR Deduplication via directional adjacency
2 versions - Latest release: over 4 years ago - 1.37 thousand downloads total - 14 stars on GitHub - 1 maintainer
Top 7.4% on crates.io
hts-sys 2.1.4
This library provides HTSlib bindings.
13 versions - Latest release: 13 days ago - 1 dependent package - 37 dependent repositories - 120 thousand downloads total - 775 stars on GitHub - 1 maintainer
ukhs 0.3.4
Universal K-mer Hitting Sets
2 versions - Latest release: about 5 years ago - 1.24 thousand downloads total - 10 stars on GitHub - 1 maintainer
scailist 0.2.0
A fast and easy interval overlap library
5 versions - Latest release: over 4 years ago - 2.28 thousand downloads total - 1 stars on GitHub - 1 maintainer
casgen 0.1.4
A way to generate cas12 6-plex CRISPR sequences
4 versions - Latest release: over 1 year ago - 1.22 thousand downloads total - 0 stars on GitHub - 1 maintainer
rosalind-cli 0.0.15
CLI for `rosalind` crate
15 versions - Latest release: over 7 years ago - 11.2 thousand downloads total - 0 stars on GitHub - 1 maintainer
disambiseq 0.1.10
Create unambiguous one-off mismatch libraries for DNA sequences
11 versions - Latest release: 11 months ago - 3 dependent packages - 3.72 thousand downloads total - 0 stars on GitHub - 1 maintainer
rboss 0.3.2
Rust Bioinformatics Toolbox
4 versions - Latest release: 3 months ago - 1.13 thousand downloads total - 1 stars on GitHub - 1 maintainer
scidataflow 0.8.11
A command-line tool to manage scientific research project data.
8 versions - Latest release: 3 months ago - 2.69 thousand downloads total - 176 stars on GitHub - 1 maintainer
gfa 0.10.1
Library for working with graphs in the GFA (Graphical Fragment Assembly) format
18 versions - Latest release: over 1 year ago - 7 dependent packages - 11 dependent repositories - 23.5 thousand downloads total - 28 stars on GitHub - 1 maintainer
fastq-count 0.1.0
Simple fastq read and base counter for paired data.
1 version - Latest release: about 5 years ago - 706 downloads total - 3 stars on GitHub - 1 maintainer
phcue-ck 0.2.0
phcue-ck is a command line tool to obtain FTP links to FASTQ files from ENA using run accession
4 versions - Latest release: over 1 year ago - 1.19 thousand downloads total - 1 stars on GitHub - 1 maintainer
bedrs 0.2.25
Genomic interval library in rust
47 versions - Latest release: 13 days ago - 3 dependent packages - 1 dependent repositories - 13.5 thousand downloads total - 30 stars on GitHub - 1 maintainer
proteinogenic 0.2.0
Chemical structure generation for protein sequences as SMILES string
2 versions - Latest release: over 2 years ago - 761 downloads total - 4 stars on GitHub - 1 maintainer
mmap-bitvec 0.4.1
A library for working with bit-vectors backed by memory-mapped files
2 versions - Latest release: 8 months ago - 1 dependent package - 1 dependent repositories - 1.03 thousand downloads total - 5 stars on GitHub - 3 maintainers
patoz 0.1.0
Protein Data Bank (pdb) File Parser
1 version - Latest release: about 4 years ago - 527 downloads total - 9 stars on GitHub - 1 maintainer
protein-translate 0.2.0
Translate nucleotide sequence to protein.
4 versions - Latest release: almost 5 years ago - 1 dependent repositories - 2.82 thousand downloads total - 5 stars on GitHub - 1 maintainer
genome-graph 8.0.0
Representation of genome graphs
38 versions - Latest release: 10 months ago - 2 dependent packages - 2 dependent repositories - 14.3 thousand downloads total - 1 maintainer
illumina_coordinates 0.9.1
Parses Illumina sequence identifiers found in FASTQ files
2 versions - Latest release: almost 6 years ago - 1.35 thousand downloads total - 0 stars on GitHub - 1 maintainer
psdm 0.2.0
Compute a pairwise SNP distance matrix from one or two alignment(s)
2 versions - Latest release: almost 2 years ago - 714 downloads total - 16 stars on GitHub - 1 maintainer
lightmotif-tfmpvalue 0.6.0
Rust reimplementation of TFMPvalue for the lightmotif crate.
5 versions - Latest release: 5 months ago - 1.29 thousand downloads total - 34 stars on GitHub - 1 maintainer
lightmotif-transfac 0.6.0
TRANSFAC parser implementation for the lightmotif crate.
8 versions - Latest release: 5 months ago - 2.05 thousand downloads total - 34 stars on GitHub - 1 maintainer
lightmotif-py 0.6.0
PyO3 bindings and Python interface to the lightmotif crate.
8 versions - Latest release: 5 months ago - 2.03 thousand downloads total - 34 stars on GitHub - 1 maintainer
recmap 0.3.5
A library for reading and working with recombination maps in Rust
5 versions - Latest release: 2 months ago - 1.41 thousand downloads total - 6 stars on GitHub - 1 maintainer
block-aligner 0.5.0
SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence ...
10 versions - Latest release: 10 months ago - 2 dependent repositories - 4.65 thousand downloads total - 116 stars on GitHub - 1 maintainer
nohuman 0.1.0
Remove human reads from a sequencing run
1 version - Latest release: 5 months ago - 292 downloads total - 9 stars on GitHub - 1 maintainer
gia 0.2.23
A tool for set theoretic operations of genomic intervals
11 versions - Latest release: 16 days ago - 2.46 thousand downloads total - 45 stars on GitHub - 1 maintainer
fpa_lr 0.5.1
fpa filter long read mapping information to save disk space
7 versions - Latest release: almost 4 years ago - 4.33 thousand downloads total - 41 stars on GitHub - 1 maintainer
seqsizzle 0.1.4
A pager for viewing FASTQ files with fuzzy matching, allowing different adaptors to be colored di...
1 version - Latest release: 2 months ago - 354 downloads total - 7 stars on GitHub - 1 maintainer
nom-pdb 0.0.9
PDB parser implemented with nom
5 versions - Latest release: over 3 years ago - 2 dependent packages - 1 dependent repositories - 4.08 thousand downloads total - 8 stars on GitHub - 1 maintainer
fastix 0.1.0
prefix renaming FASTA records
1 version - Latest release: 10 months ago - 505 downloads total - 11 stars on GitHub - 1 maintainer
skc 0.1.0
Shared k-mer content between two genomes
1 version - Latest release: 11 months ago - 329 downloads total - 17 stars on GitHub - 1 maintainer
sketchy-rs 0.6.0
Rust command line client for Sketchy
5 versions - Latest release: over 1 year ago - 2.01 thousand downloads total - 43 stars on GitHub - 1 maintainer
gtfsort 0.2.2
An optimized chr/pos/feature GTF2.5-3 sorter using a lexicographic-based index ordering algorithm...
4 versions - Latest release: 3 months ago - 1.22 thousand downloads total - 23 stars on GitHub - 1 maintainer
fxread 0.2.12
A barebones fastx reader for rust
19 versions - Latest release: 5 months ago - 5 dependent packages - 7.42 thousand downloads total - 0 stars on GitHub - 1 maintainer
rnapkin 0.3.9
CLI utility for drawing RNA secondary structure
13 versions - Latest release: about 1 year ago - 1 dependent repositories - 3.97 thousand downloads total - 5 stars on GitHub - 1 maintainer
readmerger 0.1.0-alpha
Tool for rapidly merging FASTQ files. Never use cat again!
1 version - Latest release: 7 months ago - 300 downloads total - 0 stars on GitHub - 1 maintainer
mudskipper 0.1.0
Convert genomic alignments to transcriptomic BAM/RAD files.
1 version - Latest release: over 2 years ago - 1.12 thousand downloads total - 28 stars on GitHub - 1 maintainer
rasusa 2.0.0
Randomly subsample reads or alignments
13 versions - Latest release: 19 days ago - 4.42 thousand downloads total - 186 stars on GitHub - 1 maintainer
saboten 0.1.1
Provides biedged graphs, cactus graphs and trees, and an algorithm for finding ultrabubbles in va...
9 versions - Latest release: over 3 years ago - 1 dependent package - 1 dependent repositories - 4.52 thousand downloads total - 6 stars on GitHub - 1 maintainer
casmap 0.1.3
A way to count and characterize constructs for cas12 6-plex CRISPR screens
4 versions - Latest release: over 1 year ago - 1.19 thousand downloads total - 2 stars on GitHub - 1 maintainer
bam-builder 1.0.0
A library for easily building BAMs for testing.
5 versions - Latest release: 8 months ago - 1.85 thousand downloads total - 10 stars on GitHub - 1 maintainer
hirschberg 0.1.0
Generic implementation of Hirschberg's algorithm in Rust
1 version - Latest release: 6 months ago - 308 downloads total - 2 stars on GitHub - 1 maintainer
rna-algos 0.1.37
Library of RNA Bioinformatics Algorithms
38 versions - Latest release: about 1 year ago - 6 dependent packages - 1 dependent repositories - 21.4 thousand downloads total - 2 stars on GitHub - 1 maintainer
bam2seq 0.1.2
Extract reads and reconstructed references from a .bam file using CIGAR and MD tags.
3 versions - Latest release: over 1 year ago - 890 downloads total - 5 stars on GitHub - 1 maintainer
chiral-derive 0.1.4
Derive Macro for chiral
2 versions - Latest release: 11 months ago - 2 dependent packages - 1.73 thousand downloads total - 1 stars on GitHub - 1 maintainer
sprocket 0.1.0
A package manager for the Workflow Description Language files
2 versions - Latest release: 2 months ago - 811 downloads total - 9 stars on GitHub - 1 maintainer
drprg 0.1.1
Drug resistance prediction with reference graphs
2 versions - Latest release: about 1 year ago - 595 downloads total - 19 stars on GitHub - 1 maintainer
ebiotic 0.0.25
A Rust crate for interacting with common bioinformatics web services.
7 versions - Latest release: 2 months ago - 2.21 thousand downloads total - 0 stars on GitHub - 1 maintainer
rust-sasa 0.2.2
RustSASA is a Rust library for computing the absolute solvent accessible surface area (ASA/SASA) ...
5 versions - Latest release: 22 days ago - 1.25 thousand downloads total - 3 stars on GitHub - 1 maintainer
hyperex 0.1.1
Hypervariable region primer-based extracted
2 versions - Latest release: over 2 years ago - 891 downloads total - 9 stars on GitHub - 1 maintainer
Related Keywords
rust 77 genomics 43 ngs 28 rna 26 protein 24 biology 24 proteomics 23 fastq 22 datafusion 21 arrow 21 fasta 21 sql 21 cli 20 dna 17 sequencing 16 alignment 16 science 16 parser 15 rust-library 12 data 11 genetics 11 simd 10 genomic 10 crispr 10 computational-biology 10 cheminformatics 9 bam 9 ffi 8 sequence 8 algorithms 8 genes 8 secondary-structure 8 ncbi 7 metagenomics 7 minhash 7 ai 7 gtf 7 bioinfo 7 compression 6 sequence-analysis 6 serverless 6 noodles 6 htsget 6 aws-lambda 6 rust-lang 6 graph 6 genome 6 wdl-workflow 5 wdl 5 next-generation-sequencing 5 ensembl 5 workflow 5 structural-alignment 5 workflow-engine 5 bio 5 compbio 5 sequence-motif 5 sequence-alignment 5 pssm 5 command-line-tool 5 nanopore 5 taxonomy 5 reproducibility 4 bed 4 motif 4 interval 4 nucleotide 4 sgrna 4 hts 4 nom 4 phylogenetics 4 transcriptomics 4 gff3 4 protein-sequences 4 long-read 3 kmer 3 htslib 3 newick 3 kraken 3 fast5 3 pileup 3 protein-structure 3 phylogenetic-trees 3 ranges 3 matrix 3 sam 3 vcf 3 sketches 3 hpc 3 pdb 2 parsing 2 csv-files 2 phylogeny 2 bigquery 2 blosum 2 nanopore-sequencing 2 oxford 2 oxford-nanopore 2 molecular-dynamics 2 liftover 2