HLA Alternatives

Similar projects and alternatives to HLA based on common topics and language

octopus

1 296 4.0 C++ HLA VS octopus

Bayesian haplotype-based mutation calling (by luntergroup)
DNA-Diffusion

4 335 8.3 Jupyter Notebook HLA VS DNA-Diffusion

🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨
InfluxDB

www.influxdata.com featured

Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
full_spectrum_bioinformatics

1 68 6.2 Jupyter Notebook HLA VS full_spectrum_bioinformatics

An open-access bioinformatics text
ezancestry

1 56 7.7 Jupyter Notebook HLA VS ezancestry

Easy genetic ancestry predictions in Python
synthetic-data-genomics

3 32 0.0 Jupyter Notebook HLA VS synthetic-data-genomics

Proof of concept code from Gretel.ai and Illumina using generative neural networks to create synthetic versions of mouse genotype and phenotype data.
amazon-genomics-cli-demos

1 3 0.0 Jupyter Notebook HLA VS amazon-genomics-cli-demos

Demos of what can be done with the Amazon Genomics CLI
Vcflib

0 599 8.0 C++ HLA VS Vcflib

C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings
SaaSHub

www.saashub.com featured

SaaSHub - Software Alternatives and Reviews. SaaSHub helps you find the best software and product alternatives

NOTE: The number of mentions on this list indicates mentions on common posts plus user suggested alternatives. Hence, a higher number means a better HLA alternative or higher similarity.

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HLA reviews and mentions

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HLA-Genotyping
1 project | /r/Nebulagenomics | 19 May 2023

xHLA on GitHub worked for me running it directly on the Nebula cram file with no additional processing. Results match those from OptiType (which had high memory requirements, was much slower and only covered 3 of the 6 common genes).
HLA Typing from Nebula NGS Data
1 project | /r/Nebulagenomics | 16 Nov 2022

In the meantime, when I looked over the list again I noticed a docker download for humanlongevity/HLA. I've had some success but the output is only HLA A, B, C, DPB1, DQB1, and DRB1. I'm not sure if I can update some of the resources to get it to do others I am interested in or if I will try something else.

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humanlongevity/HLA is an open source project licensed under GNU General Public License v3.0 or later which is an OSI approved license.

The primary programming language of HLA is Jupyter Notebook.