Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs

A Crash Course on Data Compression.

Chat with your notes & see links to related content with AI embeddings. Use local models or 100+ via APIs like Claude, Gemini, ChatGPT & Llama 3

THE Copilot in Obsidian

SRF: Satellite Repeat Finder

Python library for simple and complex indels.

Tandem repeat genotyping from long reads

fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector

A gene fusion caller for long-read transcriptome sequencing data.

ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.

Pairwise whole genome aligner

1-code framework: docs, C-library, and tools

Genome browser and variant annotation

Optimal sequence-to-graph alignment with recombinations

diploid SNV caller for error-prone reads

Tumour-only somatic mutation calling using long reads

Transformer-based sequence correction method for genome assembly polishing

Tandem repeat genotyping with long reads

convert reads from repeated measures of same piece of DNA into spaced matricies for deep learners.

Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

vcfdist: Accurately benchmarking phased variant calls

A organelle de novo genome assembly toolkit

Toolkit for processing TAB-delimited format

Structural variant toolkit for VCFs

HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).