tanghaibao/jcvi

Python library to facilitate genome assembly, annotation, and comparative genomics

Language: Python - Size: 17.8 MB - Last synced: 2 days ago - Pushed: 4 days ago - Stars: 701 - Forks: 180

seqan/seqan

SeqAn's official repository.

Language: C++ - Size: 150 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 452 - Forks: 170

walaj/SeqLib

C++ htslib/bwa-mem/fermi interface for interrogating sequence data

Language: C++ - Size: 11.7 MB - Last synced: 12 days ago - Pushed: 12 days ago - Stars: 132 - Forks: 36

debbiemarkslab/plmc

Inference of couplings in proteins and RNAs from sequence variation

Language: C - Size: 979 KB - Last synced: about 2 months ago - Pushed: over 1 year ago - Stars: 94 - Forks: 36

drostlab/orthologr

Genome wide orthology inference and dNdS estimation

Language: R - Size: 103 MB - Last synced: about 2 months ago - Pushed: 7 months ago - Stars: 82 - Forks: 27

pymodproject/pymod

PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.

Language: Python - Size: 1.69 MB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 69 - Forks: 19

humanlongevity/tredparse

TREDPARSE: HLI Short Tandem Repeat (STR) caller

Language: Python - Size: 4.84 MB - Last synced: 7 months ago - Pushed: over 3 years ago - Stars: 22 - Forks: 7

ranwez/MACSE_V2_PIPELINES

This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MACSE. These pipelines are mostly bash scripts encapsulated within singularity containers and sometimes combined in nextflow workflows.

Language: Shell - Size: 4 MB - Last synced: 7 months ago - Pushed: 9 months ago - Stars: 21 - Forks: 8

benhid/Sequoya

Solving Multiple Sequence Alignment (MSA) problems with multi-objective metaheuristics

Language: Python - Size: 111 MB - Last synced: 12 days ago - Pushed: about 4 years ago - Stars: 17 - Forks: 3

laurentnoe/yass

genomic alignment similarity search tool

Language: C - Size: 496 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 17 - Forks: 6

wafflespeanut/nucleic-acid 📦

BWT, FM-index and bits vector for analyzing DNA sequence data.

Language: Rust - Size: 96.7 KB - Last synced: 21 days ago - Pushed: over 6 years ago - Stars: 17 - Forks: 3

benhid/NeedlemanWunschPy 📦

This code is meant for educational purposes only! Sequence alignment in Python 3.x using Needleman–Wunsch algorithm. Reference code from TyMA (2017 - University of Málaga)

Language: Python - Size: 123 KB - Last synced: 14 days ago - Pushed: almost 7 years ago - Stars: 5 - Forks: 2

jeanmanguy/multi-seq-align

A crate to manipulate multiple sequences alignments in Rust.

Language: Rust - Size: 36.1 KB - Last synced: 19 days ago - Pushed: about 3 years ago - Stars: 4 - Forks: 2

ggirelli/ood-fish 📦

Orthogonal Oligo Design for Fluorescence In Situ Hybridization (a.k.a. OOD-FISH)

Language: R - Size: 71.3 KB - Last synced: about 1 year ago - Pushed: about 5 years ago - Stars: 4 - Forks: 2

josejimenezluna/odseq

Outlier detection in multiple sequence alignment

Language: R - Size: 3.48 MB - Last synced: 9 months ago - Pushed: over 4 years ago - Stars: 4 - Forks: 1

akiomiyao/ped

Polymorphic Edge Detection - An efficient polymorphism detector for NGS data

Language: Perl - Size: 12.5 MB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 4 - Forks: 2

mohammadtavakoli78/Bioinformatics

This is projects of Bioinformatics

Language: Python - Size: 14.6 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago - Stars: 2 - Forks: 0

laurentnoe/iedera

subset and spaced seed design tool

Language: C++ - Size: 1.26 MB - Last synced: 15 days ago - Pushed: 15 days ago - Stars: 2 - Forks: 1

kyungtaekLIM/arelia

Reliability Scoring and Masking of Multiple Sequence Alignments

Language: Python - Size: 32.2 KB - Last synced: 7 months ago - Pushed: over 7 years ago - Stars: 2 - Forks: 0

kevinah95/bmc-sequence-alignment

El presente trabajo muestra la aplicación de algoritmos de alineación de secuencias conocidos como needleman-wunsch (global), smith-waterman (local) y semi-global con sus variantes (kband o afín de costo por gap).

Language: Python - Size: 1.32 MB - Last synced: about 1 year ago - Pushed: about 7 years ago - Stars: 1 - Forks: 1

kyungtaekLIM/seqlim

Easy Manipulation of Multiple Sequence Alignments (Concatenation and Format Conversion)

Language: Python - Size: 1.08 MB - Last synced: 7 months ago - Pushed: almost 7 years ago - Stars: 0 - Forks: 1

weng-lab/bam-aggregate-task

Kotlin task for aggregating reads from a BAM file across a set of genomic regions

Language: Kotlin - Size: 11.8 MB - Last synced: 10 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

ggirelli/seq-lib-gg 📦

Base librarys for sequencing data analysis.

Language: R - Size: 7.81 KB - Last synced: about 1 year ago - Pushed: almost 7 years ago - Stars: 0 - Forks: 0

salilab/mdt

Generate frequency tables used by Modeller and IMP.

Language: C - Size: 3.99 MB - Last synced: about 2 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

liorzoue/dna-seq

Language: C# - Size: 37.1 KB - Last synced: 10 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0