steineggerlab/foldseek

Foldseek enables fast and sensitive comparisons of large structure sets.

Language: C - Size: 24.2 MB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 680 - Forks: 92

V-Z/hybseq-scripts

Set of scripts to process HybSeq target enrichment HTS data (on computing grids).

Language: Shell - Size: 2.32 MB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 4 - Forks: 3

bcgsc/HLAminer 📦

⛏ HLA predictions from NGS shotgun data

Language: Perl - Size: 161 MB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 50 - Forks: 15

ammahmoudi/IntroductionToBioinformatics

Homework Solutions for Introduction to Bioinformatics Course as Computer Science B.Sc. Student at Department of Computer Engineering, Sharif University of Technology

Language: Python - Size: 3.51 MB - Last synced at: 12 days ago - Pushed at: 12 days ago - Stars: 1 - Forks: 0

litefeel/Unity-AlignTools

Align Tools is just perfect Unity asset plugin to align gui object

Language: C# - Size: 592 KB - Last synced at: 5 days ago - Pushed at: almost 3 years ago - Stars: 99 - Forks: 25

gauravcodepro/genomic-alignment-extraction

A scalable large scale genomic fraction aligner and extractor for the large scale alignment of the genomes and the transcriptomes and process them over the cores for the extraction of the aligned regions. The aligned regions can also be mapped to the length plotter and can be machine trained for specific applications

Language: Python - Size: 72.3 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 0

gauravcodepro/graphanalyzer

a graphanalyzer package that uses the information from the paf and the gfa files for the graph alignment and uses the concurrency to process the alignments and other variables and uses a dataframe approach

Language: Python - Size: 503 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 1

bcgsc/dida

DIDA Project

Language: C++ - Size: 689 KB - Last synced at: about 1 month ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 2

nellore/rail

Scalable RNA-seq analysis

Language: Python - Size: 249 MB - Last synced at: 30 days ago - Pushed at: over 3 years ago - Stars: 72 - Forks: 11

ASSERT-KTH/STRAC

STRAC (Scalable Trace Comparison) http://arxiv.org/pdf/1910.03478

Language: Roff - Size: 27.4 MB - Last synced at: about 1 month ago - Pushed at: about 1 year ago - Stars: 5 - Forks: 0

jessicaparks/SubOptLocalAlign.jl

sub-optimal local pairwise alignments and visualization

Language: Julia - Size: 110 KB - Last synced at: 3 months ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

lvn3668/fastqcparser

Python code to compute adatper content in reads, kmer content, per-base-GC content (at a specific position in a read alignment, against reference genome), per base NC content (at a specific position in a read alignment against the reference genome), per base seq quality (across aligned reads), per base sequence content, per base quality scores, per tile sequence quality

Language: Python - Size: 12.7 KB - Last synced at: 3 months ago - Pushed at: over 2 years ago - Stars: 3 - Forks: 1

Gagniuc/Jupiter-Bioinformatics-V2-experiments

Jupiter Bioinformatics (V2) uses the local sequence alignment algorithm and a few stored experiments for further experimentation on sequence alignment. It is an open source application designed in native JavaScript, that is able to align two sequences/texts in order to match the regions that are similar.

Language: HTML - Size: 25.8 MB - Last synced at: about 1 month ago - Pushed at: about 2 years ago - Stars: 3 - Forks: 0

bioteam/covid-bioinformatics

Software tools to collect Coronavirus sequences and create protein and nucleotide HMMs

Language: Python - Size: 22 MB - Last synced at: about 2 months ago - Pushed at: over 1 year ago - Stars: 4 - Forks: 2

UniBoDS4H/IA

Fiji / ImageJ plugin for Imaging Alignment. This plugin manages two types of alignment: Manual Alignment and Automatic Alignment.

Language: Java - Size: 100 MB - Last synced at: about 2 months ago - Pushed at: 8 months ago - Stars: 8 - Forks: 0

MondecaLabs/INSEE-Alignment

Aligning INSEE SKOS concepts with relevant datasets.

Size: 1.55 MB - Last synced at: about 2 months ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 1

telatin/covtobed

⛰ covtobed | Convert the coverage track from a BAM file into a BED file

Language: C++ - Size: 56 MB - Last synced at: 8 months ago - Pushed at: about 2 years ago - Stars: 42 - Forks: 3

niaid/Principles-of-Sequence-Analysis-and-Phylogenetics

Materials for the ACE - Uganda course "Principles of Sequence Analysis and Phylogenetics" given in Spring 2020.

Size: 8.22 MB - Last synced at: 8 months ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 5

alexdonath/checker_complete-v2

Finding outlier sequences in amino acid multiple sequence alignments.

Language: Perl - Size: 463 KB - Last synced at: 8 months ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

AngeloGith/SeqMerger

SeqMerger is designed to concatenate sequences from multiple aligned FASTA files.

Language: Perl - Size: 15.6 KB - Last synced at: 4 months ago - Pushed at: 9 months ago - Stars: 1 - Forks: 0

AngeloGitH/BioSeqMerger

This Perl script serves as a powerful tool for bioinformatics specialists working with genomic sequence data. It is designed to concatenate sequences from multiple alignment FASTA files.

Language: Perl - Size: 14.6 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

damianosmel/VirusGenoUtil

This is a project to contribute utilities for ViruSurf, a viral db centered in viral sequences.

Language: Python - Size: 116 MB - Last synced at: 9 months ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

YerevaNN/PARASITE

🪱 PARASITE || A parallel sentence data preprocessing toolkit. Originally developed as a part of the `en-ru` winner submission of WMT20 Biomedical Translation Task.

Language: Python - Size: 426 KB - Last synced at: 8 months ago - Pushed at: about 3 years ago - Stars: 11 - Forks: 6

Lucy-Forrest-Lab/AlignMe

Pairwise alignment of membrane protein sequences

Language: C++ - Size: 5.87 MB - Last synced at: 9 months ago - Pushed at: 10 months ago - Stars: 5 - Forks: 0

maxbiostat/MEP_data

Data on measurably evolving populations (MEPs)

Language: R - Size: 309 KB - Last synced at: 11 months ago - Pushed at: about 7 years ago - Stars: 0 - Forks: 0

svkazakov/ra-visualizer

Genome read alignments visualizer

Language: Python - Size: 5.31 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

behnamazimi/curly-html-elements

Mini tool for arranging HTML elements along with ellipse subset shapes

Language: JavaScript - Size: 218 KB - Last synced at: 9 days ago - Pushed at: over 3 years ago - Stars: 16 - Forks: 1

soerenmetje/PairAlignment

Finds optimal alignment of two sequences

Language: Java - Size: 58.6 KB - Last synced at: about 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

anebz/thesis

The effects of word segmentation quality on word alignments.

Language: Jupyter Notebook - Size: 87.3 MB - Last synced at: about 2 months ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

crosenth/moose

dna/rna alignment classifier

Language: Python - Size: 1.08 MB - Last synced at: about 2 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 1

maxganser/consistency-script

Evaluating the consistency of molecular diagnostic characters (signature characters) detected by DeSignate.

Language: Python - Size: 33.2 KB - Last synced at: 5 months ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

campanam/ucealnstats

Calculate taxon-specific alignment statistics from a collection of UCE alignments

Language: Ruby - Size: 48.8 KB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

jrod2699/CS159-NLP-Final-Project-

Language: JavaScript - Size: 12.2 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

milesroberts-123/convert-blast-to-bed

Convert the output of BLAST to a BED file format that's suitable for uploading to JBrowse.

Language: Python - Size: 19.5 KB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 1

t-neumann/versalignLib

Showcase of parallelization technologies using sequence alignment algorithms

Language: C++ - Size: 66.9 MB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 0

aquaskyline/MICA-aligner

MICA-aligner is a new short-read aligner that is optimized in view of MIC's limitation and the extra parallelism inside each MIC core.

Language: C - Size: 1.9 MB - Last synced at: about 1 month ago - Pushed at: 6 months ago - Stars: 5 - Forks: 2