benedictpaten / sonLib
Small general purpose library for C and Python with focus on bioinformatics.
☆29Updated 2 years ago
Related projects ⓘ
Alternatives and complementary repositories for sonLib
- ☆28Updated last year
- Bam Read Index - Extract alignments from a bam file by readname☆24Updated 6 months ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆33Updated last year
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆51Updated 2 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 5 years ago
- base-accurate DNA sequence alignments using edlib and mashmap2☆33Updated 3 years ago
- Classify sequencing reads using MinHash.☆48Updated 4 years ago
- URMAP ultra-fast read mapper☆39Updated 4 years ago
- GBWT-based handle graph☆30Updated this week
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 3 years ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆45Updated 5 years ago
- Filter of Pairwise Alignement☆44Updated 2 years ago
- REINDEER REad Index for abuNDancE quERy☆56Updated 3 months ago
- A toolkit for annotation of transposable element families from unassembled sequence reads☆31Updated last year
- Python bindings to minimap2☆16Updated 7 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 4 years ago
- Scaffolding genomes using synthetic long read clouds☆20Updated 8 years ago
- Graph based multi genome aligner☆46Updated 3 years ago
- GFA insert into GenomicSQLite☆48Updated 3 years ago
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Updated 6 years ago
- exploring viral genome assembly with variation graph tools☆19Updated 4 years ago
- Parallel Sequence to Graph Alignment☆35Updated last year
- Preprocessing paired-end reads produced with experiment-specific protocols☆32Updated 6 years ago
- Indel-aware consensus from aligned BAMs☆20Updated last year
- linearize and simplify variation graphs using blocked partial order alignment☆56Updated 3 weeks ago
- My experimental tools on top of htslib. NOT OFFICIAL!!!☆53Updated last year
- Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.☆35Updated last year