Create embeddings out of any fasta/fastq nucleotide sequences. Great for downstream machine learning tasks.

Search for G-quadruplex motifs in sequencing reads and genome assemblies.

A simple genome assembly pipeline.

A nextflow pipeline that can produce phased genome assemblies with hifi and hi-c reads

Genome Feature annotations. Annotate a genome assembly with TEs (EarlGrey) and protein-coding genes (BRAKER3)

Find DNA sequence motifs with Deep Learning.

A (fragile) working version of mitohifi for the Cheng Lab

Find telomere sequence frequency in sequencing reads

Free your genome assembly from haplotype duplicates and haplotigs with purge_dups

fcs-gx and fcs_adapter for primary assembled genomes

Merge gffs of different origin

Blast a query simultaneously against multiple databases

de-Bruijn graph based assembler for short reads

rotate a circular fasta sequence

Full `ls`: A quick way to get the absolute paths of all your files in a single command

Quick(ish) comparative genomics of two species

A neovim config

A simple, cli-based to-do list

A variant caller

A genome annotation pipeline

Summarize a fasta file

Bioinformatics shell scripts for reference (Polar and Polar2020)