haplotype
Here are 33 public repositories matching this topic...
SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, and -DRB1 genes. Also, it supports both short- and long-read data.
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Jul 27, 2026 - C++
This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato breeding“
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Oct 29, 2025 - Python
A tool to visualize the haplotype pattern and various information in excel.
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Mar 5, 2025 - Python
Using de-novo assembly and read-phasing to assemble reference-free diploid genomes
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Mar 26, 2026 - R
Process linked-read data, from raw sequences to phased haplotypes, batteries included. Works with WGS too!
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Aug 21, 2026 - Python
snp.plotter is an R package that creates publishable-quality plots of p-values using single SNP and/or haplotype data.
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Jan 19, 2024 - PostScript
Joint inference of haplotypes and allele-specific expression from long-read bulk and single-cell RNA-seq
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Aug 20, 2026 - Python
A free and easy-to-use pipeline to analyse data from ancient NCR-mtDNA sequences obtained by amplicon-based NGS methods
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May 30, 2024 - Shell
Haplotype phase information based genotype refinement tool
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Jul 20, 2019 - C++
gwas workflow from raw intensity data to in-silico functional mapping
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Jun 23, 2025 - Shell
THESIAS: Testing Haplotype Effects In Association Studies
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Sep 23, 2025 - C
haplotype estimation, custom panel creation, and genotype imputation
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Jun 24, 2025 - Nextflow
*HaploCrackling* -- The Crackling-based method for variant-aware, whole-genome CRISPR-Cas9 target detection
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Jul 12, 2024 - C++
（Internal testing）ONT read-level somatic-mutation integration for local mutation-state candidate analysis and methylation association; research software.
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Aug 17, 2026 - Python
Differential role of IL36RN-IL1RN haplotype in pustular psoriasis and neutrophil transcriptomic dysregulation
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Aug 7, 2026 - R
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