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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

convert readme into docs

github.com/BioJulia/ProteinSecondaryStructures.jl - lmiq opened this issue over 1 year ago
add conversion from SAM to BAM

github.com/BioJulia/XAM.jl - jonathanBieler opened this pull request over 1 year ago
Fix deprecated find in header docs

github.com/BioJulia/XAM.jl - jonathanBieler opened this pull request over 1 year ago
Computing the secondary structure map - ''KeyError: key "b" not found''

github.com/BioJulia/ProteinSecondaryStructures.jl - LV-IQ opened this issue over 1 year ago
structure filename

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
tests and fix doc img

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
Re-enable SIMD when Julia supports ISA-specific code

github.com/BioJulia/Automa.jl - jakobnissen opened this issue over 1 year ago
Dev

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
CompatHelper: bump compat for "ScanByte" to "0.4"

github.com/BioJulia/FASTX.jl - github-actions[bot] opened this pull request over 1 year ago
Bump ScanByte

github.com/BioJulia/FASTX.jl - jakobnissen opened this pull request over 1 year ago
Bump ScanByte to 0.4.0

github.com/BioJulia/Automa.jl - jakobnissen opened this pull request over 1 year ago
CompatHelper: bump compat for MolecularGraph to 0.15, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request over 1 year ago
CompatHelper: bump compat for Meshes to 0.32, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request over 1 year ago
CompatHelper: add new compat entry for DelimitedFiles at version 1, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request over 1 year ago
Dev-Update Project.jl

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
Dev

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
[WIP] convert SAM to BAM

github.com/BioJulia/XAM.jl - jonathanBieler opened this issue over 1 year ago
`method=:nb` does not work for sctransform

github.com/BioJulia/SingleCellProjections.jl - pmodv opened this issue over 1 year ago
Error when translating gaps

github.com/BioJulia/BioSequences.jl - jakobnissen opened this pull request over 1 year ago
Translation Issue arising from `isambiguous(DNA_Gap) == false`

github.com/BioJulia/BioSequences.jl - chelate opened this issue over 1 year ago
add FST unit tests [feature]

github.com/BioJulia/PopGen.jl - pdimens opened this issue over 1 year ago
Mann-Whitney U test (Wilcoxon rank-sum test)

github.com/BioJulia/SingleCellProjections.jl - rasmushenningsson opened this pull request over 1 year ago
domain name of this repo should be updated

github.com/BioJulia/BioSequences.jl - ctarn opened this issue over 1 year ago
CompatHelper: bump compat for Meshes to 0.31, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request over 1 year ago
package does not precompile

github.com/BioJulia/FASTX.jl - pfarndt opened this issue over 1 year ago
[bug] parallel addition must use atomic values (or Locks)

github.com/BioJulia/PopGen.jl - pdimens opened this issue over 1 year ago
CompatHelper: bump compat for Meshes to 0.30, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request over 1 year ago
CompatHelper: add new compat entry for DelimitedFiles at version 1, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request over 1 year ago
MMCIF reading error

github.com/BioJulia/BioStructures.jl - ivanpmartell opened this issue over 1 year ago
Use lowercase in DNA sequences

github.com/BioJulia/BioSequences.jl - ruysan opened this issue over 1 year ago
CompatHelper: bump compat for Meshes to 0.29, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request over 1 year ago
Real data with exome sequencing on MRPL40 gene for patient NA12878

github.com/BioJulia/FormatSpecimens.jl - apraga opened this pull request over 1 year ago
Fix doc examples for writer with do-syntax

github.com/BioJulia/FASTX.jl - jakobnissen opened this pull request over 1 year ago
chore: Update GenomicFeatures to v3

github.com/BioJulia/Indexes.jl - MillironX opened this pull request over 1 year ago
Bump version to v3.1.4

github.com/BioJulia/BioSequences.jl - jakobnissen opened this pull request over 1 year ago
Bump version to v5.1.3

github.com/BioJulia/BioSymbols.jl - jakobnissen opened this pull request over 1 year ago
while loop got eof error

github.com/BioJulia/XAM.jl - junjunlab opened this issue over 1 year ago
Update ci.yml

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
Dev

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
readme2

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
Update README.md

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
CI workflow

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
MolGraph version

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
change ci

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
Dev

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
Implement copy! for records

github.com/BioJulia/FASTX.jl - jakobnissen opened this pull request over 1 year ago
CompatHelper: bump compat for StatsBase to 0.34, (keep existing compat)

github.com/BioJulia/PopGen.jl - github-actions[bot] opened this pull request over 1 year ago
CompatHelper: bump compat for StatsBase to 0.34, (keep existing compat)

github.com/BioJulia/PopGenCore.jl - github-actions[bot] opened this pull request over 1 year ago
docs figs

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
Dev

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
pull hotfixes

github.com/BioJulia/PopGen.jl - pdimens opened this pull request over 1 year ago
Migrate from SnoopPrecompile to PrecompileTools

github.com/BioJulia/FASTX.jl - timholy opened this pull request over 1 year ago
Migrate from SnoopPrecompile to PrecompileTools

github.com/BioJulia/SingleCellProjections.jl - timholy opened this pull request over 1 year ago
Migrate from SnoopPrecompile to PrecompileTools

github.com/BioJulia/BioSymbols.jl - timholy opened this pull request over 1 year ago
Migrate from SnoopPrecompile to PrecompileTools

github.com/BioJulia/BioSequences.jl - timholy opened this pull request over 1 year ago
Create robots.txt

github.com/BioJulia/biojulia.github.io - pdimens opened this pull request over 1 year ago
add robots.txt to served site

github.com/BioJulia/biojulia.github.io - pdimens opened this pull request over 1 year ago
Create robots.txt

github.com/BioJulia/biojulia.github.io - pdimens opened this pull request over 1 year ago
CompatHelper: bump compat for MolecularGraph to 0.14, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/biojulia.github.io - kescobo opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/WaveletMatrices.jl - kescobo opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/SubstitutionModels.jl - kescobo opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/PopGen.jl - kescobo opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/PopGenCore.jl - kescobo opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/KmerAnalysisMakie.jl - kescobo opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/KmerAnalysis.jl - kescobo opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/FormatSpecimens.jl - kescobo opened this pull request over 1 year ago
Update URLs from biojulia.net to biojulia.dev

github.com/BioJulia/BioSequences.jl - kescobo opened this pull request over 1 year ago
Release/v3.0.0

github.com/BioJulia/GenomicFeatures.jl - CiaranOMara opened this pull request over 1 year ago
Correct `ensure_buffered_data`

github.com/BioJulia/BGZFStreams.jl - CiaranOMara opened this pull request over 1 year ago
TagBot trigger issue

github.com/BioJulia/IntervalTrees.jl - JuliaTagBot opened this issue over 1 year ago
docs markdown

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
add RNASeqTools TSS tutorial

github.com/BioJulia/BioTutorials - maltesie opened this pull request over 1 year ago
msa and docs

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
Release/v2.1.0

github.com/BioJulia/GenomicFeatures.jl - CiaranOMara opened this pull request over 1 year ago
Release v1.1.0

github.com/BioJulia/IntervalTrees.jl - CiaranOMara opened this pull request over 1 year ago
Remove erroneous constructor

github.com/BioJulia/IntervalTrees.jl - CiaranOMara opened this pull request over 1 year ago
Dev

github.com/BioJulia/BioMakie.jl - kool7d opened this pull request over 1 year ago
[Feature]: Add `alignment` and `cigar` getters

github.com/BioJulia/SequenceVariation.jl - MillironX opened this pull request over 1 year ago
[Feature]: Add method to remove sequence match info from cigar

github.com/BioJulia/BioAlignments.jl - MillironX opened this issue over 1 year ago
Rosalind problems

github.com/BioJulia/BioTutorials - kescobo opened this pull request over 1 year ago
Rosalind.info problems

github.com/BioJulia/BioTutorials - kescobo opened this issue over 1 year ago
[Feature]: Add checker for contradicting `Variation`s and `Haplotype`s

github.com/BioJulia/SequenceVariation.jl - MillironX opened this issue over 1 year ago
[Feature]: Add ability to `translate` from one haplotype to another

github.com/BioJulia/SequenceVariation.jl - MillironX opened this issue over 1 year ago
[Feature]: Add getter for alignment of a haplotype to its reference

github.com/BioJulia/SequenceVariation.jl - MillironX opened this issue over 1 year ago
Dummy issue to upload plots

github.com/BioJulia/SingleCellProjections.jl - rasmushenningsson opened this issue over 1 year ago
CompatHelper: bump compat for Clustering to 0.15, (keep existing compat)

github.com/BioJulia/PopGen.jl - github-actions[bot] opened this pull request over 1 year ago
Remove NFA nodes more aggressively

github.com/BioJulia/Automa.jl - jakobnissen opened this issue almost 2 years ago
Breaking changes for v1

github.com/BioJulia/Automa.jl - jakobnissen opened this pull request almost 2 years ago
fix doctest

github.com/BioJulia/ReadDatastores.jl - banhbio opened this pull request almost 2 years ago
bump compat for FASTX to v2

github.com/BioJulia/GFF3.jl - banhbio opened this issue almost 2 years ago
Use explicit imports, not `using FASTX`

github.com/BioJulia/ReadDatastores.jl - jakobnissen opened this issue almost 2 years ago
Bump BioSequences/FASTX to v3/v2

github.com/BioJulia/ReadDatastores.jl - banhbio opened this pull request almost 2 years ago
CompatHelper: add new compat entry for CondaPkg at version 0.2, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request almost 2 years ago
CompatHelper: add new compat entry for PythonCall at version 0.9, (keep existing compat)

github.com/BioJulia/BioMakie.jl - github-actions[bot] opened this pull request almost 2 years ago
Prefer staying inside regex to exiting it

github.com/BioJulia/Automa.jl - jakobnissen opened this issue almost 2 years ago
Remove dependency on Printf

github.com/BioJulia/Automa.jl - jakobnissen opened this pull request almost 2 years ago
Issues with Tokenizer

github.com/BioJulia/Automa.jl - jakobnissen opened this issue almost 2 years ago
Fix iterator constructor and other failing tests

github.com/BioJulia/Kmers.jl - cjprybol opened this pull request almost 2 years ago
Fix behavior of iterate on indices <= 0

github.com/BioJulia/BioSequences.jl - cjprybol opened this pull request almost 2 years ago