johanneskoester / alpacaLinks
ALPACA is a caller for genomic variants (single nucleotide and small indels) from next-generation sequencing data that uses a novel algebraic approach to incorporate sample based filtering into the calling. This allows to intuitively control the FDR for arbitrary filtering scenarios.
☆23Updated 11 months ago
Alternatives and similar repositories for alpaca
Users that are interested in alpaca are comparing it to the libraries listed below
Sorting:
- reference free variant assembly☆34Updated 2 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Updated 6 years ago
- robust matching of small variant datasets using flexible scoring schemes☆11Updated 5 years ago
- dEploid is designed for deconvoluting mixed genomes with unknown proportions. Traditional ‘phasing’ programs are limited to diploid organ…☆21Updated 9 months ago
- Homebrew formulae for bioinformatics software only available for Linux☆27Updated 6 years ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆71Updated last year
- A message queue for genomic surveillance☆19Updated 4 years ago
- Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang☆31Updated 5 years ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Updated 8 years ago
- Malleable All-seeing Journal Of Research Artifacts☆35Updated 2 years ago
- ☆36Updated 5 years ago
- Online material and code base for the article Coordinates and Intervals in Graph Based Reference Genomes☆11Updated 8 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 4 years ago
- Sample an approximate number of reads from a fastq file without reading the entire file☆11Updated 8 years ago
- ☆13Updated 9 years ago
- a wee tool for random access into BGZF files.☆85Updated 7 years ago
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Updated 5 years ago
- Python CLI for alignment-free genomics.☆12Updated this week
- Reference-free variant discovery in large eukaryotic genomes☆41Updated 4 years ago
- drunk on perbase pileups and lua expressions☆19Updated 5 months ago
- SMBL - SnakeMake Bioinformatics Library. Automatic installation of bioinformatics software in your SnakeMake pipelines.☆23Updated 8 years ago
- overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites☆33Updated 4 months ago
- Python bindings to minimap2☆16Updated 8 years ago
- Collection of utilities for working with PacBio-based assemblies☆13Updated 2 years ago
- simple bioinformatics command-line (t)ools (i) (w)ished (i) (h)ad.☆44Updated 2 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆52Updated last year
- haplotypes genotypes and alleles example decision synthesizer☆20Updated 6 years ago
- sfasta☆35Updated 5 months ago
- Variant call adjudication☆16Updated last year
- A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)☆14Updated 4 years ago