Jon Sanders's repositories

snakemake_assemble

Modular snakemake workflow for assembly-based metagenomics

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tetrapod_microbiome_analysis

An analysis of the tetrapod microbiome

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Dehydrator

Precision control for food dehydrators

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oecophylla

shotgun pipeline

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snarkmark

a snakemake workflow for benchmarking HTC systems for bioinformatics

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2019_Cornell_Microbiome_Hackathon

Docs and links for the 2019 Microbiome Hackathon at Cornell

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atropos-multiqc

MultiQC plugin for Atropos. (beta)

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calour

exploratory and interactive microbiome analyses based on heatmaps

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deblur

Deblur is a greedy deconvolution algorithm based on known read error profiles.

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emp

Data, code and analysis results for the Earth Microbiome Project.

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EMP_impact

estimating impact factor for EMP studies

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labman

lab manager for plate maps and sequence flows

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Moeller_Opentrons_Labware

Custom labware library for Moeller Opentrons protocols

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MultiQC

Aggregate results from bioinformatics analyses across many samples into a single report.

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MultiQC_TestData

Test data for MultiQC. See https://github.com/ewels/MultiQC

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NSF_COA_GooSchol_parser

A Jupyter notebook for parsing your Google Scholar list for NSF COA purposes

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pyvenn

2 ~ 6 sets venn diagram for python

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q2-fragment-insertion

QIIME2 plugin for fragment insertion

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qiime2R

Import qiime2 artifacts to R

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qiita

Qiita - A multi-omics databasing effort

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ratsnake_shotgun

Snakemake testbed for shotgun integration into Qiita

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scikit-bio

Core objects, functions and statistics for working with biological data in Python.

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script_bin

A collection of potentially useful scripts

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sntest

quick snakemake tests

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The-Doot-Changer

Files and designs for The Doot Changer

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