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leahkemp/README.md

Hello!

I'm a human (as far as I know, and as far as you know...). I like data and dancing. They haven't yet occured simultaneously, but there is time yet 💅

I'm a big fan of code being able to be run more than once (aka. reproducibility) because inefficiency hurts my head. I'm convinced that, after containers and workflow languages, one of the major factors of getting to the illusive "reproducibility" is tailoring the code to suit the end user and make it as easy as possible to access. This leads nicely into the importance of good documentation and Marie Kondo level tidiness...

Pinned

  1. ESR-NZ/human_genomics_pipeline ESR-NZ/human_genomics_pipeline Public

    A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

    Python 28 21

  2. ont_human_workflow ont_human_workflow Public

    A generic best practice workflow for processing human Oxford Nanopore Technologies (ONT) sequencing data.

    Shell 2 1

  3. hyperparathyroid_analysis_20221102 hyperparathyroid_analysis_20221102 Public

    Analysis documentation for research into the variants associated with hyperparathyroidism. Illumina, germline, human, whole exome sequence (WES) data from the CCDHB.

    Shell

  4. guinea_pore_c guinea_pore_c Public

    Analysis documentation for part of the reference genome assembly of the humble guinea pig. Oxford Nanopore Technologies (ONT) pore-c data.

    HTML

  5. smncrna_analysis_template smncrna_analysis_template Public

    Small non-coding RNA analysis template for analysing Illumina small RNAseq data.

    HTML 1

  6. nesi/snakemake_workshop nesi/snakemake_workshop Public

    Snakemake workshop

    HTML 4 7