ajalab/fm-index

FM-index for Rust

Language: Rust - Size: 321 KB - Last synced at: 4 days ago - Pushed at: 5 days ago - Stars: 22 - Forks: 2

seqan/seqan3

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

Language: C++ - Size: 22.8 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 424 - Forks: 83

femto-dev/femto

Sequence Indexing and Search

Language: C++ - Size: 4.79 MB - Last synced at: 11 days ago - Pushed at: 12 days ago - Stars: 106 - Forks: 25

xxsds/sdsl-lite Fork of simongog/sdsl-lite

Succinct Data Structure Library 3.0

Language: C++ - Size: 11 MB - Last synced at: 21 days ago - Pushed at: 21 days ago - Stars: 94 - Forks: 18

lh3/bwa

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

Language: C - Size: 1.7 MB - Last synced at: 25 days ago - Pushed at: about 1 month ago - Stars: 1,595 - Forks: 555

dynatrace-oss/index4j

Dynatrace FM-Index library

Language: Java - Size: 3.4 MB - Last synced at: 23 days ago - Pushed at: 2 months ago - Stars: 12 - Forks: 1

TravisWheelerLab/AvxWindowFmIndex

A fast, AVX2 and ARM Neon accelerated FM index library

Language: C - Size: 885 KB - Last synced at: 9 days ago - Pushed at: 5 months ago - Stars: 32 - Forks: 5

andreaferretti/cello

A string library

Language: Nim - Size: 230 KB - Last synced at: 24 days ago - Pushed at: over 2 years ago - Stars: 79 - Forks: 10

kris96tian/bioinfo_tool

Web App: Generate suffix array, Burrows-Wheeler transform, and FM indices for input strings Translate DNA sequences into their corresponding protein sequences

Language: Python - Size: 122 KB - Last synced at: 36 minutes ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

lh3/ropebwt2

Incremental construction of FM-index for DNA sequences

Language: TeX - Size: 195 KB - Last synced at: about 2 months ago - Pushed at: 11 months ago - Stars: 70 - Forks: 5

lh3/ropebwt3

BWT construction and search

Language: C - Size: 287 KB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 89 - Forks: 2

shenwei356/bwt

Burrows-Wheeler Transform and FM-index in golang

Language: Go - Size: 36.1 KB - Last synced at: 15 days ago - Pushed at: about 2 years ago - Stars: 20 - Forks: 4

achacond/gem-cutter

Highly optimized genomic resources for GPUs

Language: C - Size: 551 KB - Last synced at: 5 months ago - Pushed at: over 6 years ago - Stars: 4 - Forks: 1

Superb-Man/Advanced_DSA

Some of my leisure activities.

Language: C++ - Size: 70.3 KB - Last synced at: 2 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

ITBE-Lab/MA

The Modular Aligner and The Modular SV Caller

Language: C++ - Size: 11.4 MB - Last synced at: about 2 months ago - Pushed at: almost 2 years ago - Stars: 46 - Forks: 3

jindada1/FM-index

《COMP620028 信息检索》课程作业：FM-index 实验

Language: C++ - Size: 1.34 MB - Last synced at: about 1 year ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

ikegami-yukino/shellinford-python

Wavelet Matrix/Tree succinct data structure for full text search (based on shellinford C++ library)

Language: C++ - Size: 471 KB - Last synced at: about 1 month ago - Pushed at: about 6 years ago - Stars: 22 - Forks: 3

Matthew-Mosior/text-compression

Language: Haskell - Size: 134 KB - Last synced at: 13 days ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 2

fjdf/SpliceTAPyR

Splice-aware Tool for Alignment of Pyrosequencing Reads

Language: C - Size: 189 KB - Last synced at: over 1 year ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 1

hewillk/aligner

Highly optimized Burrow-Wheeler Aligner specifically for Illumina ~150 bp short-read alignment.

Language: C++ - Size: 547 KB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 1 - Forks: 0

redmitry/gecoz

Language: Java - Size: 1.13 MB - Last synced at: almost 2 years ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

dfguan/deSPI

fast classification of metagenomic sequences with lightweight de Bruijin graph-based reference indexing

Language: C++ - Size: 3.02 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 10 - Forks: 5

dominikkempa/faster-minuter

Wavelet tree based on a fixed block boosting technique

Language: C++ - Size: 26.4 KB - Last synced at: about 2 years ago - Pushed at: almost 4 years ago - Stars: 12 - Forks: 1

rossmerr/fm-index

FM-index

Language: Go - Size: 25.4 KB - Last synced at: 11 months ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 1

c0D3M/Suffix-Arrays

Algorihms about Suffix Array Construction, Suffix Tree, Longest Common Prefix, Burrows Wheeler Transform,

Language: C++ - Size: 306 KB - Last synced at: almost 2 years ago - Pushed at: over 5 years ago - Stars: 10 - Forks: 2

chusAB/bvSFMindex

bvSFM (bit-vector sampled FM-index) is a tool for sequence alignment.

Language: C - Size: 397 KB - Last synced at: almost 2 years ago - Pushed at: almost 5 years ago - Stars: 1 - Forks: 0

ITBE-Lab/seed-evaluation

Evaluation tools for "A performant bridge between fixed-size and variable-size seeding"

Language: Python - Size: 136 KB - Last synced at: about 2 months ago - Pushed at: over 4 years ago - Stars: 6 - Forks: 1

saishsali/cse549

Computational Biology Assignments

Language: Python - Size: 21.5 KB - Last synced at: about 2 years ago - Pushed at: over 7 years ago - Stars: 1 - Forks: 1