#

dna

Here are 548 public repositories matching this topic...

biopython / biopython

Open

Define SeqFeature sub for integer offset

peterjc commented Jan 1, 2022

See https://github.com/biopython/biopython/blob/master/Bio/SeqFeature.py and __add__, need to do the same specifically for integer offsets.

Workaround feature + (-5) instead of feature - 5, see https://twitter.com/tomeraltman/status/1473764959347638273

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Enhancement good first issue

Open

silence warnings PDBConstructionWarning in test_PDB_StructureAlignment.py

4

Open

PAML run method docstrings - return value

16

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google / deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

science machine-learning bioinformatics deep-learning genomics genome tensorflow ngs sequencing dna deep-neural-network deepvariant

Updated Jan 28, 2022
Python

broadinstitute / gatk

Official code repository for GATK versions 4 and up

java science bioinformatics spark genomics genome cluster ngs sequencing gatk-jar dna gatk

Updated Jan 31, 2022
Java

galaxyproject / galaxy

Data intensive science for everyone.

docker science workflow bioinformatics pipeline genomics workflow-engine ngs sequencing dna usegalaxy hacktoberfest

Updated Feb 1, 2022
Python

vgteam / vg

tools for working with genome variation graphs

genomics graph dna variation-graph genome-graph

Updated Jan 31, 2022
C++

google / nucleus

Python and C++ code for reading and writing genomics data.

bioinformatics genomics tensorflow dna

Updated Dec 9, 2021
C++

dib-lab / khmer

In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more

python bioinformatics bloom-filter dna count-min-sketch k-mer graph-traversal

Updated Mar 31, 2021
Python

dna-3d-engine

pallada-92 / dna-3d-engine

3d engine implementation in DNA code!

biology dna chemical-kinetics cube 3d chemical-reaction-networks molecular-biology 3d-engine chemical-reactions raymarching in-vitro piperine strand-displacement molecular-programming real-reactive-programming

Updated Nov 29, 2020

SupportIntelligence / Icewater

16,432 Free Yara rules created by

cluster threat dna malware-analysis yara

Updated Jun 1, 2019
YARA

mdshw5 / pyfaidx

Efficient pythonic random access to fasta subsequences

python bioinformatics genomics indexing dna protein fasta samtools bgzf

Updated Jan 31, 2022
Python

BioJulia / Bio.jl

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

bioinformatics genomics biology deprecated dna biojulia biojulia-packages

Updated May 27, 2020
Julia

chanzuckerberg / shasta

De novo assembly from Oxford Nanopore reads.

nanopore assembly sequencing dna long-read pacbio de-novo

Updated Jan 31, 2022
C++

samtools / htsjdk

A Java API for high-throughput sequencing data (HTS) formats.

java genomics gradle intellij jar ngs sequencing oracle sam vcf dna java-api fasta bam failure cram htsjdk

Updated Jan 25, 2022
Java

poly

TimothyStiles / poly

Sponsor

A Go package for engineering organisms.

bioinformatics synthetic-biology computational-biology dna genbank fasta molecular-biology synbio bioengineering primer-design golden-gate dna-barcode plasmids dna-barcoding codon-optimizer genetic-engineering sequence-assembly engineering-organisms sequence-hashing

Updated Jan 30, 2022
Go

RosettaCommons / PyRosetta.notebooks

Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design

jupyter-notebook dna rosetta rna-structure-prediction protein-design protein-folding protein-structure-prediction google-colab pyrosetta protein-docking

Updated Jan 23, 2022
Jupyter Notebook

ugene

ugeneunipro / ugene

UGENE is free open-source cross-platform bioinformatics software

science workflow bioinformatics cross-platform pipeline cpp ngs sequencing qt5 dna msa ugene

Updated Feb 1, 2022
C++

genomics

igordot / genomics

A collection of scripts and notes related to genomics and bioinformatics

science workflow bioinformatics nanopore genomics sequencing vcf dna fasta gtf illumina fastq fast5

Updated Oct 7, 2021
R

nextstrain / nextclade

Open

Rebuild `nextstrain/base` Docker image automatically?

fanninpm commented Dec 13, 2021

I noticed that every time augur and auspice get updated, it triggers a rebuild of the nextstrain/base Docker image. Would it be reasonable to add a trigger to this reposi

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t:feat good first issue help wanted needs triage

Open

Allow for reverse-complemented input sequences

Open

Mark "short" sequences

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lmdu / pyfastx

a python package for fast random access to sequences from plain and gzipped FASTA/Q files

python bioinformatics genome biology assembly dna fasta sequence fastq

Updated Jul 30, 2021
C

biologyguy / BuddySuite

Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files

python workflow bioinformatics command-line biology dna protein phylogenetics alignment

Updated Dec 6, 2021
Python

apriha / lineage

tools for genetic genealogy and the analysis of consumer DNA test results

bioinformatics snps genetics genealogy dna ancestry genes genotype chromosomes

Updated Jan 24, 2022
Python

cslarsen / arv

A fast 23andMe DNA parser and inferrer for Python

python bioinformatics snps genome dna snpedia 23andme

Updated Nov 9, 2019
C++

seqviz

Lattice-Automation / seqviz

DNA sequence viewer supporting custom, GenBank, FASTA, NCBI accession, and iGEM input.

visualization reactjs synthetic-biology vector dna igem plasmid

Updated Jan 31, 2022
TypeScript

pydna

BjornFJohansson / pydna

Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

python bioinformatics jupyter anaconda simulation biology jupyter-notebook dna biopython gel jupyter-notebooks anaconda-server-badge pydna gel-simulation gibson-assembly cloning-strategies gel-electrophoresis assembly-strategies

Updated Dec 4, 2021
Jupyter Notebook

lightdock

lightdock / lightdock

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

bioinformatics chemistry structural-biology molecular-structures protein-structure artificial-intelligence dna protein proteomics docking peptides molecular-biology protein-design protein-protein-interaction swarm-intelligence structural-bioinformatics protein-dna-interactions bioinformatics-tool glowworm-swarm-optimization protein-docking

Updated Jan 26, 2022
C

context

kennethreitz / context

Raw dump of Kenneth Reitz's DNA Sequence, Ancestry, Genealogy, &c.

genome dna ancestry kennethreitz gedcom 23andme promethease gedcom-files geneology human-genome

Updated Oct 2, 2019
HTML

mozack / abra2

ABRA2

ngs dna rna indels abra splice-junctions realigner

Updated Oct 11, 2021
Java

cslarsen / dna-traits

A fast 23andMe genome text file parser, now superseded by arv

python bioinformatics snps genomics dna snpedia 23andme health-report

Updated Nov 12, 2017
Python

bingmann / cobs

COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)

dna cobs index k-mers

Updated Nov 24, 2021
C++

awesome-genetics

plashchynski / awesome-genetics

A curated list of awesome bioinformatics software.

bioinformatics genomics genetics health dna ancestry snpedia 23andme geneology consumer-dna-test

Updated Dec 10, 2017

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