Pinned Repositories
matchtigs
Minimum plain text representation of kmer sets
practical-omnitigs
A repository to conduct experiments with omnitig-related models for genome assembly.
abstract-datastructures-rs
Some traits defining data structures
bigraph-rs
Represent bigraphs in an abstract manner.
compact-genome-rs
Bit-packed genome storage
fastx-statistics-rs
Rust tool to compute basic statistics of fasta or fastq files.
genome-graph-rs
Types as well as IO functions for genome graphs.
homopolymer-compress-rs
Homopolymer compression of genomic data.
omnitigs-rs
Implementations of omnitig related algorithms.
template-switch-aligner
A sequence-to-sequence aligner that accounts for template switches
sebschmi's Repositories
sebschmi/homopolymer-compress-rs
Homopolymer compression of genomic data.
sebschmi/bcalm
compacted de Bruijn graph construction in low memory
sebschmi/bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
sebschmi/cargo-release
Cargo subcommand "release": everything about releasing a rust crate.
sebschmi/codegen-course
sebschmi/drawio
Source to www.draw.io
sebschmi/Flye
De novo assembler for single molecule sequencing reads using repeat graphs
sebschmi/HI.SIM
HiFi error modeler and simulator with ploidy
sebschmi/hifiasm
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
sebschmi/InSilicoSeq
:rocket: A sequencing simulator
sebschmi/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
sebschmi/minimap2-homopolymer-decompression
Homopolymer decompress minimap alignments
sebschmi/minimap2-paf-io
Read and write files in minimap2's PAF format.
sebschmi/minimizer-iterator-rs
An iterator over the minimizers of a sequence.
sebschmi/prophasm
ProphAsm – a tool for computing simplitigs and k-mer sets manipulation
sebschmi/rust-mdbg
minimizer-space de Bruijn graphs (mdBG) for whole genome assembly
sebschmi/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
sebschmi/wtdbg2
Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly