mutatrix: a population genome simulator which generates simulated genomes.
genome simulation across a population with zeta-distributed allele frequency, snps, insertions, deletions, and multi-nucleotide polymorphisms More at https://github.com/ekg/mutatrix ./mutatrix -S sample -P test/ -p 2 -n 10 reference.fasta1557 days ago
SVEngine: Allele Specific and Haplotype Aware Structural Variants Simulator
...matched sample scenarios. SVEngine takes as input reference contigs in FASTA files, variant meta distribut...onal phylogenetic trees in cancer. SVEngine outpus alterred contigs in FASTA files, spiked-in variants in...1399 days ago
parallelLastz: Lastz with multi-threads support.
...ttps://github.com/lastz/lastz) in parallel mode. This program is for single computer with multiple core processors. When the query file format is fasta, you can specify many threads...1350 days ago
Kmer: a suite of tools for DNA sequence analysis
...cc) species. Optimized for high-throughput batched alignment. LEAFF: LEAFF (ahem, Let's Extract Anything From Fasta) is a utility program for working with multi-fasta files. In addition to providi...989 days ago
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UniqueKmer: Generate unique KMERs for every contig in a FASTA file
Generate unique k-mers for every contig in a FASTA file. Unique k-mer is consisted of k-mer keys (i.e. ATC...or both forward and reverse strands). This tool accepts the input of a FASTA file consisting of many conti...868 days ago
820 days ago
SeqFu: A Suite of Utilities for the Robust and Reproducible Manipulation of Sequence Files
A general-purpose program to manipulate and parse information from FASTA/FASTQ files, supporting gzipped in...S. A compiled program delivering high performance analyses Supports FASTA/FASTQ files, also Gzip compre...794 days ago
gfastats: The swiss army knife for genome assembly.
gfastats is a single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulation. gfastats also allows seamless f...603 days ago
Orthoflow: workflow for phylogenetic inference of genome-scale datasets of protein-coding genes
...oding genes. Our goal was to make it straightforward to work from a combination of input sources including annotated contigs in Genbank format and FASTA files containing CDSs. It use...72 days ago