sebschmi

University of HelsinkiHelsinki

Pinned Repositories

matchtigs
Minimum plain text representation of kmer sets
Language:Rust17 6 45
practical-omnitigs
A repository to conduct experiments with omnitig-related models for genome assembly.
Language:Jupyter Notebook4 5 1080
abstract-datastructures-rs
Some traits defining data structures
Language:Rust3 1 00
bigraph-rs
Represent bigraphs in an abstract manner.
Language:Rust1 1 00
compact-genome-rs
Bit-packed genome storage
Language:Rust1 1 00
fastx-statistics-rs
Rust tool to compute basic statistics of fasta or fastq files.
Language:Rust1 1 00
genome-graph-rs
Types as well as IO functions for genome graphs.
Language:Rust1 1 01
homopolymer-compress-rs
Homopolymer compression of genomic data.
Language:Rust1 1 01
omnitigs-rs
Implementations of omnitig related algorithms.
Language:Rust1 2 01
template-switch-aligner
A sequence-to-sequence aligner that accounts for template switches
Language:Rust0 2 50

sebschmi/bcalm
compacted de Bruijn graph construction in low memory
Language:Python0 0 00
sebschmi/bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
Language:C0 0 00
sebschmi/cargo-release
Cargo subcommand "release": everything about releasing a rust crate.
Language:Rust
sebschmi/drawio
Source to www.draw.io
Language:JavaScript
sebschmi/InSilicoSeq
:rocket: A sequencing simulator
Language:Python0 0
sebschmi/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
Language:C0 0
sebschmi/prophasm
ProphAsm – a tool for computing simplitigs and k-mer sets manipulation
Language:C++0 0
sebschmi/rust-mdbg
minimizer-space de Bruijn graphs (mdBG) for whole genome assembly
Language:Rust0 0
sebschmi/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
Language:HTML0 0