A python program that uses ReadBack phased haplotypes in population of samples and returns extended haplotype blocks.
☆15Oct 30, 2024Updated last year
Alternatives and similar repositories for phase-extender
Users that are interested in phase-extender are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A python parser to simplify and build the VCF (Variant Call Format).☆49Oct 30, 2024Updated last year
- Visualizing genetic sequence variation☆13Apr 27, 2020Updated 5 years ago
- ☆10Mar 4, 2025Updated last year
- This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings☆12Oct 1, 2021Updated 4 years ago
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Simulate GWAS data from an arbitrary DAG☆11Oct 29, 2025Updated 4 months ago
- An integrated package to process diploid Hi-C data☆17Dec 9, 2021Updated 4 years ago
- phasing and Allele Specific Expression from RNA-seq☆118Updated this week
- Context-aware AI dictionary for books, manga & comics. Neural TTS (Piper), IPA generation, PaddleOCR, multi-word lookup. Supports cloud &…☆19Feb 5, 2026Updated last month
- Improved Phased Assembler☆28Mar 11, 2022Updated 4 years ago
- Haplotype aware de novo assembly of diploid genome from long reads☆54Mar 16, 2022Updated 4 years ago
- Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data☆16Apr 2, 2024Updated last year
- Unzip assembly graphs with Hi-C data and/or long reads.☆27Sep 20, 2024Updated last year
- Pre-mAsking Long reads for Mobile Element inseRtion☆20Feb 9, 2026Updated last month
- ☆10Nov 3, 2020Updated 5 years ago
- Detecting genome structural variants with deep learning in single molecule sequencing☆115Apr 9, 2025Updated 11 months ago
- ☆15May 11, 2018Updated 7 years ago
- Adaptive haplotype assembly for efficiently leveraging high coverage in long reads☆13Sep 4, 2018Updated 7 years ago
- Gene-based test of allele-specific expression without requiring haplotype information☆16Mar 20, 2018Updated 8 years ago
- Split-read pipeline for the identification of non-reference TE insertions with TSDs☆25Sep 14, 2020Updated 5 years ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆108Jun 6, 2021Updated 4 years ago
- Annotation of cryptic transposon variants using Hidden Markov Models to detect conserved terminal features.☆10Jan 27, 2026Updated last month
- Bioinformatics scripts for genome analysis☆17Oct 26, 2022Updated 3 years ago
- Code and files accompanying article "The landscape of somatic mutation in normal colorectal epithelial cells"☆11Mar 21, 2021Updated 5 years ago
- Scripts to do haplotype analysis on pan genomes.☆20Sep 24, 2020Updated 5 years ago
- This is a series of scripts on the rapid construction of target interval consensus sequences from bam files and the rapid construction of…☆17Jan 12, 2024Updated 2 years ago
- ☆11May 11, 2023Updated 2 years ago
- Python library for processing and visualizing Hi-C data☆20May 31, 2020Updated 5 years ago
- TEFLoN uses paired-end illumina sequence data to discover and genotype transposable elements present in your samples.☆13Mar 5, 2021Updated 5 years ago
- do some exercise☆14Dec 2, 2025Updated 3 months ago
- A tool for simulating random mutations in any genome☆43Feb 7, 2024Updated 2 years ago
- program for haplotype phasing from sequence reads and related tools☆25Nov 29, 2018Updated 7 years ago
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago
- DNN-DTIs: improved drug-target interactions prediction using XGBoost feature selection and deep neural network☆12Mar 5, 2021Updated 5 years ago
- add true-negative SVs from a population callset to a truth-set.☆14Jun 17, 2022Updated 3 years ago
- ☆10Jun 13, 2020Updated 5 years ago
- command-line tools for the management of genotype likelihoods and allele counts☆30Feb 12, 2024Updated 2 years ago
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 10 months ago
- do multiple nucleotide sequence alignment fast and accurately☆18Dec 1, 2022Updated 3 years ago