13 projects
tirmite
Map profile HMMs of transposon termini to genomic sequences for annotation of cryptic transposon variants.
telomore
Identify and extract telomeric sequences from Oxford Nanopore or Illumina sequencing reads to extend Streptomycetes assemblies.
tsplit
Extract terminal repeats from retrotransposons (LTRs) or DNA transposons (TIRs). Compose synthetic MITES from complete DNA transposons.
flexidot
Flexible dotplotting of genomic sequences.
derip2
Predict ancestral sequence of fungal repeat elements by correcting for RIP-like mutations in multi-sequence DNA alignments.
teloclip
A tool for the recovery of unassembled telomeres from raw long-reads using soft-clipped read alignments.
mimeo
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
blastbesties
Rapid discovery of reciprocal best blast pairs from BLAST output files.
tinscan
Find alignment signatures characteristic of transposon insertion sites.
oxli
oxli is a Rust library + Python interface for counting k-mers in genomic sequencing data.
yanagiba
Filter short or low quality Oxford Nanopore reads which have been basecalled with Albacore.
TE-splitter
Extract terminal repeats from retrotransposons (LTRs) or DNA transposons (TIRs). Compose synthetic MITES from complete DNA transposons.
frisk
frisk: Detection of sequence composition anomalies using multiple order kmers.
