Pinned

1. teloclip Public

   A tool for the recovery of unassembled telomeres from soft-clipped read alignments.

   Python 15 2

2. mimeo Public

   Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.

   Python 1 2

3. TE-insertion-scanner Public

   Scan whole genome alignments for signatures of transposon insertion.

   Python 1 1

4. TIRmite Public

   Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.

   Python 4 3

5. TE-Reunite Public

   For a set of reference transposons, collect instances from one or more genomes. Use aligned collections to build models capturing TE family diversity or produce deRIP'd reference sequence.

   Python 1

6. deRIP2 Public

   Predict progenitor sequence of fungal repeat families by correcting for RIP-like mutations and cytosine deamination events. Mask RIP or deamination events from alignments.

   Python