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BioJulia

Bioinformatics and Computational Biology in Julia
Collective - Host: opensource - https://opencollective.com/biojulia - Website: https://biojulia.net - Code: https://github.com/BioJulia

Support Julia LTS version

github.com/BioJulia/GenomeGraphs.jl - SabrinaJaye opened this pull request over 4 years ago
Support LTS

github.com/BioJulia/FormatSpecimens.jl - SabrinaJaye opened this pull request over 4 years ago
Delete unused files

github.com/BioJulia/FASTX.jl - SabrinaJaye opened this pull request over 4 years ago
Use stable RNG (take two)

github.com/BioJulia/BioSequences.jl - jakobnissen opened this pull request over 4 years ago
Remove integer conversion and arithmetic

github.com/BioJulia/BioSymbols.jl - jakobnissen opened this pull request over 4 years ago
Run on Julia LTS

github.com/BioJulia/FASTX.jl - SabrinaJaye opened this pull request over 4 years ago
Inbounds FASTQ parser

github.com/BioJulia/FASTX.jl - jakobnissen opened this pull request over 4 years ago
Naive Kmers counter

github.com/BioJulia/NTupleKmers.jl - CiaranOMara opened this pull request over 4 years ago
LTS support

github.com/BioJulia/BioSymbols.jl - CiaranOMara opened this pull request over 4 years ago
Use libdeflate instead of zlib

github.com/BioJulia/BGZFStreams.jl - jakobnissen opened this issue over 4 years ago
filter function for IntervalCollection

github.com/BioJulia/GenomicFeatures.jl - hsugawa8651 opened this pull request over 4 years ago
Update GenomeGraphs to use KmerAnalysis.jl

github.com/BioJulia/GenomeGraphs.jl - SabrinaJaye opened this pull request over 4 years ago
CompatHelper: add new compat entry for "KmerAnalysis" at version "0.1"

github.com/BioJulia/KmerAnalysisMakie.jl - github-actions[bot] opened this pull request over 4 years ago
Optimize reduce_nodes

github.com/BioJulia/Automa.jl - jakobnissen opened this pull request over 4 years ago
Optimize reduce_nodes(::DFA)

github.com/BioJulia/Automa.jl - jakobnissen opened this issue over 4 years ago
Uninstallable on Julia 1.0

github.com/BioJulia/Indexes.jl - jakobnissen opened this issue over 4 years ago
Add Project.toml

github.com/BioJulia/GeneticVariation.jl - jakobnissen opened this issue over 4 years ago
Make parser unambiguous

github.com/BioJulia/GeneticVariation.jl - jakobnissen opened this issue over 4 years ago
Fix parser ambiguity

github.com/BioJulia/GFF3.jl - jakobnissen opened this pull request over 4 years ago
Fix ambiguity in parser

github.com/BioJulia/XAM.jl - jakobnissen opened this pull request over 4 years ago
Resolve parser ambiguity

github.com/BioJulia/BigBed.jl - jakobnissen opened this pull request over 4 years ago
Disallow DFAs with ambiguous actions [RFC]

github.com/BioJulia/Automa.jl - jakobnissen opened this pull request over 4 years ago
CompatHelper: add new compat entry for "AbstractPlotting" at version "0.11"

github.com/BioJulia/KmerAnalysisMakie.jl - github-actions[bot] opened this pull request over 4 years ago
CompatHelper: bump compat for "BioAlignments" to "2.0"

github.com/BioJulia/BioStructures.jl - github-actions[bot] opened this pull request over 4 years ago
CompatHelper: bump compat for "BioSequences" to "2.0"

github.com/BioJulia/BioStructures.jl - github-actions[bot] opened this pull request over 4 years ago
Release on General registry

github.com/BioJulia/MicrobiomePlots.jl - SabrinaJaye opened this issue over 4 years ago
Send BioSymbols to General

github.com/BioJulia/BioJuliaRegistry - SabrinaJaye opened this pull request over 4 years ago
DFAs can take wrong actions due to ambiguities

github.com/BioJulia/Automa.jl - jakobnissen opened this issue over 4 years ago
New version: XAM v0.2.4

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
hotfix/iterate

github.com/BioJulia/XAM.jl - CiaranOMara opened this pull request over 4 years ago
New version: GenomicFeatures v2.0.2

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
New version: GenomicFeatures v2.0.1

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
release/v2.0.1

github.com/BioJulia/GenomicFeatures.jl - CiaranOMara opened this pull request over 4 years ago
Looping over vcf file 10x slower than reading line by line

github.com/BioJulia/GeneticVariation.jl - biona001 opened this issue over 4 years ago
New package: TwoBit v0.1.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
CompatHelper: add new compat entry for "BioGenerics" at version "0.1"

github.com/BioJulia/TwoBit.jl - github-actions[bot] opened this pull request over 4 years ago
CompatHelper: bump compat for "FixedPointNumbers" to "0.8"

github.com/BioJulia/BigBed.jl - github-actions[bot] opened this pull request over 4 years ago
CompatHelper: bump compat for "ColorTypes" to "0.10"

github.com/BioJulia/BigBed.jl - github-actions[bot] opened this pull request over 4 years ago
New package: BigWig v0.1.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
New package: BigBed v0.1.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
TwoBit Developemnt

github.com/BioJulia/TwoBit.jl - sinclaircooper opened this issue over 4 years ago
I am trying to run 'using Biosequences' on Julia Version 1.4.1 on a Windows 10 PC.

github.com/BioJulia/Bio.jl - ManaseeTW opened this issue over 4 years ago
I am trying the code 'using Biosequences'

github.com/BioJulia/Bio.jl - ManaseeTW opened this issue over 4 years ago
Is this repo still alive.

github.com/BioJulia/PopGen.jl_archive - alanrogers opened this issue over 4 years ago
CompatHelper: add new compat entry for "AbstractPlotting" at version "0.10"

github.com/BioJulia/KmerAnalysis.jl - github-actions[bot] opened this pull request over 4 years ago
CompatHelper: bump compat for "DataFrames" to "0.21"

github.com/BioJulia/BioStructures.jl - github-actions[bot] opened this pull request over 4 years ago
New version: BiobakeryUtils v0.3.3

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
New version: Microbiome v0.6.4

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
Remove constructor

github.com/BioJulia/IntervalTrees.jl - CiaranOMara opened this pull request over 4 years ago
Correct non-overlapping query

github.com/BioJulia/GenomicFeatures.jl - CiaranOMara opened this pull request over 4 years ago
IntervalIntersectionIterator Constructor

github.com/BioJulia/IntervalTrees.jl - CiaranOMara opened this issue over 4 years ago
Is there any way to check whether chromosome is available for a BAM file when using eachoverlap()?

github.com/BioJulia/XAM.jl - yuifu opened this issue over 4 years ago
Verify the "biojulia.net" domain with the "BioJulia" GitHub organization

github.com/BioJulia/biojulia.github.io - DilumAluthge opened this issue over 4 years ago
Question: how to make an explicit NFA?

github.com/BioJulia/Automa.jl - lesshaste opened this issue over 4 years ago
Initial draft of dist_mem

github.com/BioJulia/KmerAnalysis.jl - SabrinaJaye opened this pull request over 4 years ago
Implement ReadDatastore specific exceptions for file validation

github.com/BioJulia/ReadDatastores.jl - SabrinaJaye opened this pull request over 4 years ago
New version: XAM v0.2.3

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
CompatHelper: bump compat for "ReadDatastores" to "0.3"

github.com/BioJulia/KmerAnalysis.jl - github-actions[bot] opened this pull request over 4 years ago
CompatHelper: bump compat for "ReadDatastores" to "0.3"

github.com/BioJulia/GenomeGraphs.jl - github-actions[bot] opened this pull request over 4 years ago
New version: ReadDatastores v0.3.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
Improved opening of datastore files

github.com/BioJulia/ReadDatastores.jl - SabrinaJaye opened this pull request over 4 years ago
New version: BiobakeryUtils v0.3.2

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
Use first and last accessors for downstream flexibility

github.com/BioJulia/IntervalTrees.jl - CiaranOMara opened this pull request over 4 years ago
feature/ci

github.com/BioJulia/IntervalTrees.jl - CiaranOMara opened this pull request over 4 years ago
hotfix/project

github.com/BioJulia/IntervalTrees.jl - CiaranOMara opened this pull request over 4 years ago
New version: XAM v0.2.2

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request over 4 years ago
Memory leak

github.com/BioJulia/XAM.jl - CiaranOMara opened this issue almost 5 years ago
CompatHelper: bump compat for "CodecZlib" to "0.7"

github.com/BioJulia/BioStructures.jl - github-actions[bot] opened this pull request almost 5 years ago
CompatHelper: bump compat for "RecipesBase" to "1.0"

github.com/BioJulia/BioStructures.jl - github-actions[bot] opened this pull request almost 5 years ago
CompatHelper: bump compat for "RecipesBase" to "1.0"

github.com/BioJulia/MicrobiomePlots.jl - github-actions[bot] opened this pull request almost 5 years ago
LoadError: UndefVarError: LongSequence not defined during precompilation step

github.com/BioJulia/FASTX.jl - fethalen opened this issue almost 5 years ago
New package: GenomicVectors v1.0.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
New package: GenomicVectors v0.5.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
Remove use of internal `encode_copy!` [DO NOT MERGE]

github.com/BioJulia/FASTX.jl - jakobnissen opened this pull request almost 5 years ago
Looping over a VCF file seems to incur huge memory

github.com/BioJulia/GeneticVariation.jl - biona001 opened this issue almost 5 years ago
Recipesbase compat

github.com/BioJulia/BioStructures.jl - mkborregaard opened this pull request almost 5 years ago
New version: XAM v0.2.1

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
Add docs on reading gzipped files

github.com/BioJulia/FASTX.jl - kescobo opened this pull request almost 5 years ago
Cap Indexes and XAM entries

github.com/BioJulia/BioJuliaRegistry - CiaranOMara opened this pull request almost 5 years ago
New version: XAM v0.2.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
CompatHelper: bump compat for "ColorTypes" to "0.10"

github.com/BioJulia/BED.jl - github-actions[bot] opened this pull request almost 5 years ago
CompatHelper: bump compat for "Colors" to "0.12"

github.com/BioJulia/MicrobiomePlots.jl - github-actions[bot] opened this pull request almost 5 years ago
New version: XAM v0.1.1

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
New version: Pseudoseq v0.2.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
docs for xmldict

github.com/BioJulia/BioServices.jl - aguang opened this pull request almost 5 years ago
Fixes to compat bump

github.com/BioJulia/GenomeGraphs.jl - SabrinaJaye opened this pull request almost 5 years ago
New version: ReadDatastores v0.2.1

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
Feature request: More helpful IO error messages

github.com/BioJulia/BioCore.jl - ivirshup opened this issue almost 5 years ago
[WIP] Fix microbiome package deps

github.com/BioJulia/BioJuliaRegistry - kescobo opened this pull request almost 5 years ago
CompatHelper: bump compat for "StatsPlots" to "0.14"

github.com/BioJulia/MicrobiomePlots.jl - github-actions[bot] opened this pull request almost 5 years ago
CompatHelper: add new compat entry for "Reexport" at version "0.2"

github.com/BioJulia/MicrobiomePlots.jl - github-actions[bot] opened this pull request almost 5 years ago
New version: Microbiome v0.6.3

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
Update compats

github.com/BioJulia/MicrobiomePlots.jl - kescobo opened this pull request almost 5 years ago
CompatHelper: bump compat for "FixedPointNumbers" to "0.8"

github.com/BioJulia/BED.jl - github-actions[bot] opened this pull request almost 5 years ago
[RFC] Deregister and re-register Microbiome packages

github.com/BioJulia/BioJuliaRegistry - kescobo opened this issue almost 5 years ago
New version: BiobakeryUtils v0.3.1

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
CompatHelper: bump compat for "ReadDatastores" to "0.2"

github.com/BioJulia/GenomeGraphs.jl - github-actions[bot] opened this pull request almost 5 years ago
New version: ReadDatastores v0.2.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
New version: ReadDatastores v0.2.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago
New package: BED v0.1.0

github.com/BioJulia/BioJuliaRegistry - BioJuliaBot opened this pull request almost 5 years ago