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Search results for bioinformatics dna
bioinformatics
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dna
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100 search results found
Biopython
⭐
3,918
Official git repository for Biopython (originally converted from CVS)
Deepvariant
⭐
2,978
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
Gatk
⭐
1,576
Official code repository for GATK versions 4 and up
Galaxy
⭐
1,211
Data intensive science for everyone.
Khmer
⭐
729
In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more
Nucleus
⭐
675
Python and C++ code for reading and writing genomics data.
Poly
⭐
620
A Go package for engineering organisms.
Dnafeaturesviewer
⭐
500
👁️ Python library to plot DNA sequence features (e.g. from Genbank files)
Pyfaidx
⭐
427
Efficient pythonic random access to fasta subsequences
Bismark
⭐
335
A tool to map bisulfite converted sequence reads and determine cytosine methylation states
Bio.jl
⭐
256
[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia
Lightdock
⭐
234
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
Pyfastx
⭐
211
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
Janggu
⭐
205
Deep learning infrastructure for genomics
Ugene
⭐
190
UGENE is free open-source cross-platform bioinformatics software
Dnachisel
⭐
168
✏️ A versatile DNA sequence optimizer
Genomics
⭐
154
A collection of scripts and notes related to genomics and bioinformatics
Pydna
⭐
140
Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
Dnanalyzer
⭐
122
Revolutionizing DNA analysis and making it accessible to all through innovative AI-powered analysis and interpretive tools
Lineage
⭐
114
tools for genetic genealogy and the analysis of consumer DNA test results
Eager
⭐
112
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
Buddysuite
⭐
105
Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files
Fastq.bio
⭐
93
An interactive web tool for quality control of DNA sequencing data
Cljam
⭐
87
A DNA Sequence Alignment/Map (SAM) library for Clojure
Referenceseeker
⭐
85
Rapid determination of appropriate reference genomes.
Snps
⭐
82
tools for reading, writing, merging, and remapping SNPs
Verifybamid
⭐
78
VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
Arv
⭐
75
A fast 23andMe DNA parser and inferrer for Python
Pyfeat
⭐
68
A Python-based Effective Feature Generation Tool from DNA, RNA, and Protein Sequences
Dna Traits
⭐
64
A fast 23andMe genome text file parser, now superseded by arv
Catch
⭐
63
A package for designing compact and comprehensive capture probe sets.
Awesome Genetics
⭐
62
A curated list of awesome bioinformatics software.
Arioc
⭐
54
Arioc: GPU-accelerated DNA short-read alignment
Gblastn
⭐
52
G-BLASTN is a GPU-accelerated nucleotide alignment tool based on the widely used NCBI-BLAST.
Dna Nn
⭐
51
Model and predict short DNA sequence features with neural networks
Gccontent Benchmark
⭐
49
Benchmarking different languages for a simple bioinformatics task (Counting the GC fraction of DNA in a FASTA file)
Bioblender21
⭐
47
Blender plugin to process biological data and molecular work.
Deepsomatic
⭐
45
DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal sequencing data.
Fluentdna
⭐
43
FluentDNA allows you to browse sequence data of any size using a zooming visualization similar to Google Maps. You can use FluentDNA as a standalone program or as a python module for your own bioinformatics projects.
Sesame
⭐
43
🍪 SEnsible Step-wise Analysis of DNA MEthylation BeadChips
Cfdnapattern
⭐
42
Pattern Recognition for Cell-free DNA
Bioinfortools
⭐
42
Bioinformatics scripts and tools
Tailfindr
⭐
32
An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
Cpgtools
⭐
29
Python package to analyze DNA methylation data
Candis
⭐
27
🎀 A data mining suite for gene expression data.
Orfipy
⭐
25
Fast and flexible ORF finder
Crazydoc
⭐
22
Read DNA sequences from colourful Microsoft Word documents
Methrix
⭐
22
An R 📦 for fast and flexible DNA methylation analysis
Sequencework
⭐
22
programs and scripts, mainly python, for analyses related to nucleic or protein sequences
Dna Sculpture
⭐
21
3D printed sculpture of a DNA molecule, showing my own genome
Rosalind Solutions
⭐
21
my solutions to problems from Rosalind.
Lightdock Python2.7
⭐
20
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
Aptasuite
⭐
20
A full-featured bioinformatics software collection for the comprehensive analysis of aptamers in HT-SELEX experiments.
Libdna
⭐
20
♥ Essential Functions for DNA Manipulation
Phat
⭐
17
Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform
Sdust
⭐
17
Symmetric DUST for finding low-complexity regions in DNA sequences
Codex
⭐
17
A minimal genetic data explorer that processes all genetic information locally.
Eltetrado
⭐
17
A Python application to find and classify tetrads and quadruplexes in DNA/RNA 3D structures
Adapt
⭐
16
A package for designing activity-informed nucleic acid diagnostics for viruses.
Mapping Iterative Assembler
⭐
15
Consensus calling (or "reference assisted assembly"), chiefly of ancient mitochondria
Goldenrecord
⭐
15
one aesthetic way to store musical notes into nucleic acid sequence
Nucleic Acid
⭐
15
BWT, FM-index and bits vector for analyzing DNA sequence data.
Hypothesis Bio
⭐
14
Hypothesis extension for computational biology
Scriptmanager
⭐
14
Miprimer
⭐
13
Webapp for design DNA primers for miRNA qPCR process
Taxontabletools
⭐
13
TaxonTableTools - A comprehensive, platform-independent graphical user interface software to explore and visualise DNA metabarcoding data
Fingernat
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12
Software for detecting non-covalent interactions formed within complexes of nucleic acids with ligands.
Modle
⭐
12
High-performance stochastic modeling of DNA loop extrusion interactions
Dna Sequence Classification
⭐
12
Analysis of DNA Sequence Classification Using Neural Networks - Bioinformatics Course Project - Winter 2022
Mtat.03.239_bioinformatics
⭐
12
Teaching materials and tutorials for the bioinformatics course thought at the University of Tartu
Neurobind
⭐
11
Yet Another Model Using Neural Networks for Predicting Binding Preferences of for Test DNA Sequences
Gotranseq
⭐
11
convert nucleic sequence in protein sequence
Deepvariant On Spark
⭐
11
DeepVariant-on-Spark is a germline short variant calling pipeline that runs Google DeepVariant on Apache Spark at scale.
Algebra
⭐
10
A Boolean Algebra for Genetic Variants
Repp
⭐
10
Repository-based plasmid design
Awesome Underinvestigated Biology
⭐
10
Topics in biology that are not researched as much as they should be
Coursera Bioinformatics
⭐
9
My solution to Bioinformatics Specialization (Finding Hidden Messages in DNA; Genome Sequencing; Comparing Genes, Proteins, and Genomes; Molecular Evolution; Genomic Data Science and Clustering; Finding Mutations in DNA and Proteins; Bioinformatics Capstone: Big Data in Biology)
Seqshuffle.jl
⭐
9
Shuffle the string sequences such that the k-mer frequency is preserved in each string
Metabar
⭐
9
metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.
Nimna
⭐
8
DNA/RNA folding in Nim
Blss
⭐
8
A suite of unique bioinformatics tools for the brave explorer.
Ipdmhc
⭐
8
Github for files currently published in the IPD-MHC FTP Directory hosted at the European Bioinformatics Institute
Nwalgo
⭐
8
Needleman-Wunsch Alignment in Go
Hydroid
⭐
7
Python package for analyzing hydroxyl-radical footprinting experiments of DNA-protein complexes
Pydamage
⭐
7
Damage parameter estimation for ancient DNA
Fonda
⭐
7
Fonda is a framework which offers scalable and automatic analysis of multiple NGS sequencing data types
Bionode Seq
⭐
7
Module for DNA, RNA and protein sequences manipulation
Ggmotif
⭐
6
add DNA sequence motifs to ggplot
Blast Binder
⭐
6
Repo for running command line-based BLAST in Jupyter environment provided via Binder.
Bioinformaticsfromcoursera
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6
Bioinformatics_algorithms
⭐
5
Python code covering some of the algorithms underlying the following fundamental topics in bioinformatics: assembling genomes, comparing DNA and protein sequences, finding regulatory motifs, analyzing genome rearrangements, identifying proteins, and many other topics.
Molbiox
⭐
5
Utilities and protocols for bioinformatics
Peng Motif
⭐
5
PEnG-motif is an open-source software package for searching statistically overrepresented motifs (position specific weight matrices, PWMs) in a set of DNA sequences.
Logojs Package
⭐
5
Javascript package for embedding sequence logos
Genomics Dl Papers
⭐
5
"The human interpretation of a disability is a primitive departmentalized view of ignorance." ― Alastair Agutter
Rdna Nexus
⭐
5
Functions to analyse UK Biobank genetic data directly from DNA Nexus' RStudio Workbench
Simplebio.jl
⭐
5
Easy-to-use biological sequence tools working with DNA, RNA and aminoacid sequences.
Mybiotools
⭐
5
Python scripts for biologists
Dima
⭐
5
A command-line tool that analyses the diversity and motifs of protein/nucleotide sequences.
Biomarkovchains.jl
⭐
5
Representing biological sequences as Markov chains
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