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VACmap: a long-read aligner specifically designed for complex structural variation discovery
Differentiable SDE solvers with GPU support and efficient sensitivity analysis.
Extension of dynamax repo to cases with continuous-time dynamics with measurements sampled at possibly irregular discrete times. Allows generic inference of dynamical systems parameters from partia…
This is the github repo to benchmark long read SV tools
Genotyping of copy number sensitive allele-specific haplotypes
EasyFigAssembler simplifies the assembly of publication-quality scientific figures. It helps free scientists from technical burdens, so we can focus more on science.
a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
LexicMap: efficient sequence alignment against millions of prokaryotic genomes
Identify long STRs, VNTRs, satellite DNA and other low-complexity regions in a genome
MMseqs2: ultra fast and sensitive search and clustering suite
Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)
ProbMinHash – A Class of Locality-Sensitive Hash Algorithms for the (Probability) Jaccard Similarity
Centromere sequence analysis using rare k-mer markers
Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration
multimodal alignment H&E RGB images to DAPI one channel images
Sparse Lazy Array Format (SLAF) for Single-Cell Genomics
Fast Approximate Membership Filters (C++)
Integrating GWAS and spatial transcriptomics for spatially resolved mapping of cells associated with human complex traits.
State is a machine learning model that predicts cellular perturbation response across diverse contexts
ONEcode package to replace SAM/BAM, especially for eDNA mapping to everything