xguse/gusPyProj

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Python
Created about 15 years ago
Updated over 13 years ago

xguse/gusPyProj

xguse

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blacktie

Blacktie: a streamlined interface to the popular tophat/cufflinks RNA-seq pipeline

table_enforcer

Table Enforcer is my attempt to apply a sort of "test driven development" workflow to data cleaning and validation. A python package to facilitate the iterative process of developing and using schema-like representations of DataFrames in pandas for recoding and validating instances of these data.

cookiecutter-snakemake-analysis-pipeline

A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.

Combinatorics

This set of basic combinatorics functions supplements Python's itertools module.

rSeqPipeline

personal RNAseq analysis pipeline for the lab

scipherPyProj

Collection of bioinformatic python code.

conda-package-repo

This is a site to host my self-built conda packages for cross location installations.

BiBench

BiBench is a Python library designed to simplify biclustering tasks.

extract-genome-region

Given a CSV file of variable information defining the regions of interest, return a file that contains a fasta-formatted representation of these regions.

snaketools

gatk-best-practices-interpretation

spartan

A spartan bioinformatics package, providing only the essentials and nothing fancy or luxurious. Enough to get the job done quickly without flourish.

gProj

A personal project management application based on task inputs/outputs rather than timelines. /*NOT ready for consumption*/

customTAMO

Repo for my changes to the TAMO framework