BioJulia/Contributing BioJulia/Contributing

  • Stars
    star
    14
  • Rank 1,438,076 (Top 29 %)
  • Language
  • License
    MIT License
  • Created over 8 years ago
  • Updated over 1 year ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
BioJulia/Contributing
github

BioJulia

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

Documentation, guidelines, and policy on contributing to all BioJulia repositories

More Repositories

1

Bio.jl

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia
Julia
257
star
2

Automa.jl

A julia code generator for regular expressions
Julia
187
star
3

BioSequences.jl

Biological sequences for the julia language
Julia
136
star
4

BioStructures.jl

A Julia package to read, write and manipulate macromolecular structures
Julia
93
star
5

GenomeGraphs.jl

A modern genomics framework for julia
Julia
60
star
6

BioAlignments.jl

Sequence alignment tools
Julia
56
star
7

BioMakie.jl

Plotting and interface tools for biology.
Julia
53
star
8

FASTX.jl

Parse and process FASTA and FASTQ formatted files of biological sequences.
Julia
48
star
9

PopGen.jl

Population Genetics in Julia
Julia
45
star
10

IntervalTrees.jl

A data structure for efficient manipulation of sets of intervals
Julia
42
star
11

BioFmtSpecimens

A collection of bioinformatics file format specimens to test against
Roff
37
star
12

GeneticVariation.jl

Datastructures and algorithms for working with genetic variation
Julia
35
star
13

BioTutorials

Tutorial Notebooks of BioJulia
Jupyter Notebook
30
star
14

GenomicFeatures.jl

Tools for genomic features in Julia.
Julia
29
star
15

BioCore.jl

Core types and interfaces for BioJulia packages
Julia
29
star
16

BioSymbols.jl

Nucleic and amino acid primitive types
Julia
28
star
17

Libz.jl

Fast, flexible zlib bindings.
Julia
27
star
18

XAM.jl

Parse and process SAM and BAM formatted files
Julia
23
star
19

FMIndexes.jl

FM-index for full-text search
Julia
19
star
20

BioServices.jl

Julia interface to APIs for various bio-related web services
Julia
19
star
21

MemoryViews.jl

Simple, low-level views into memory in Julia
Julia
17
star
22

SingleCellProjections.jl

Analysis of Single Cell Expression data in Julia
Julia
17
star
23

Kmers.jl

In development: Kmer types and methods for julia
Julia
17
star
24

SubstitutionModels.jl

Biological Sequence Substitution Models for Julia
Julia
16
star
25

GenomicAnnotations.jl

Julia
14
star
26

BGZFStreams.jl

BGZF Stream
Julia
13
star
27

IndexableBitVectors.jl

Fully indexable dictionaries - access/rank/select operations
Jupyter Notebook
12
star
28

ProteinSecondaryStructures.jl

Wrapper to protein secondary structure calculation packages
Julia
12
star
29

Codecs.jl

Common data encoding algorithms
Julia
11
star
30

ReadDatastores.jl

Datastores for reads, not your papa's FASTQ files.
Julia
11
star
31

KmerAnalysis.jl

K-mer counting algorithms and count-data utilities for the BioJulia framework
Julia
11
star
32

WaveletMatrices.jl

The Wavelet Matrix
Julia
10
star
33

BioGenerics.jl

Generic methods, types and modules for the BioJulia ecosystem.
Julia
10
star
34

GenomeBrowsers.jl

Julia
10
star
35

FormatSpecimens.jl

Biological file format specimens for testing packages, and functions to assist in testing.
Julia
10
star
36

BioJuliaRegistry

The BioJulia package registry
9
star
37

BioFetch.jl

Easily fetch biological sequences from online sources
Julia
9
star
38

SequenceVariation.jl

Biological sequence variation
Julia
9
star
39

TwoBit.jl

Support for working with 2Bit formatted sequence data files
Julia
9
star
40

Phylogenies.jl

The BioJulia package for working with phylogenetic trees and geneologies.
Julia
8
star
41

PopGen.jl_archive

Population Genetics functions in Julia.
Julia
8
star
42

GFF3.jl

Julia
7
star
43

MMTF.jl

A julia package to parse and write MMTF file
Julia
7
star
44

biojulia.github.io

BioJulia's Website
HTML
7
star
45

PopGenCore.jl

Core utilities for PopGen.jl, including the PopData type and file IO
Julia
6
star
46

BED.jl

Julia
5
star
47

NaturalSelection.jl

A package containing methods for looking at the effects of natural selection
Julia
5
star
48

CWL.jl

Utilities for working with the Common Workflow Language (CWL) from Julia
5
star
49

talks

Slides and materials for talks about BioJulia
Jupyter Notebook
5
star
50

Dat.jl

Types and methods for interacting with Dat from the Julia REPL and programs.
4
star
51

BigWig.jl

Julia
4
star
52

biojulia_handbook

4
star
53

MicrobiomePlots.jl

Julia
3
star
54

BBI.jl

Julia
3
star
55

BigBed.jl

Julia
3
star
56

BioJuliaDocs

Julia
3
star
57

BioBridgeR.jl

Compatibility between R classes and BioJulia types for bioinformatics
Julia
3
star
58

ragel7

Ragel 7 fork with a few Julia fixes
C++
2
star
59

ReferenceSequences.jl

Data structure for reference sequences
Julia
2
star
60

WAHVectors.jl

Compress bit vectors using the Word Aligned Hybrid method.
Julia
2
star
61

KmerAnalysisMakie.jl

Makie recpies for visualising KmerAnalysis types and results.
Julia
2
star
62

assets

Logos and other assets
JavaScript
2
star
63

Indexes.jl

Julia
2
star
64

NCBIBlast.jl

Thin wrapper around NCBI's BLAST+ CLI https://www.ncbi.nlm.nih.gov/books/NBK569856/
Julia
2
star
65

abstracts

Abstracts for conference talks, posters, and papers
1
star
66

BSG.jl

A wrapper for the BSG library and suite of tools
1
star
67

juju

A version manager for Julia
1
star
68

BioJulia-stickers

Stickers and logos for BioJulia packages
1
star
69

GraphicalFragmentAssembly.jl

Parser for the GFA format
Julia
1
star
70

Community-Issues

Repo to track BioJulia organisation level issues.
1
star