SchlossLab

Repositories

• Hannigan_CRCVirome_mBio_2018

  Investigating the gut virus communities associated with colon cancer.

  microbiome reproducible-paper cancer-virome phages
  PostScript MIT 5 8 0 1 Updated Sep 20, 2020

• mikropml

  User-Friendly Machine Learning Package for Classification Problems

  machine-learning rstats r-package
  R MIT 5 9 10 0 Updated Sep 18, 2020

• mothuR

  R package to work with mothur output files

  rstats microbiome r-package mothur
  R 11 19 6 0 Updated Sep 14, 2020

• mikRopML-snakemake-workflow

  Template for running mikRopML with Snakemake
  Python 0 0 0 0 Updated Sep 10, 2020

• Great_Lakes_SLURM

  Using the Great Lakes cluster and batch computing with SLURM

  hpc slurm batch-computing
  2 1 1 0 Updated Sep 8, 2020

• schlosslab.github.io

  The website for the Schloss Lab at the University of Michigan
  CSS 23 5 1 0 Updated Sep 3, 2020

• Tomkovich_Vendor_XXXX_2020
  HTML CC0-1.0 0 0 0 0 Updated Aug 20, 2020

• Schloss_Singletons_XXXXX_2019
  R MIT 0 1 0 0 Updated Jul 2, 2020

• plot-recreation

  Re-creating plots to learn cool tricks and practice problem-solving.

  tidyverse data-viz code-club
  GPL-3.0 0 0 0 0 Updated Jun 28, 2020

• Topcuoglu_ML_mBio_2020

  Best practices for applying machine learning to bacterial 16S rRNA gene sequencing data

  reproducible-research reproducible-paper
  R MIT 5 10 7 1 Updated Jun 10, 2020

• tidy-eval

  A brief introduction to tidy evaluation

  tidyverse code-club tidy-eval
  GPL-3.0 0 0 0 0 Updated May 18, 2020

• 2020-04-12-CodeClub_PlotAnimation

  Tutorial of using gganimate to animate plots made with ggplot.
  R 0 0 0 0 Updated Apr 13, 2020

• new_project

  Forked from Reproducible-Science-Curriculum/rr-init
  R 35 12 0 0 Updated Apr 10, 2020

• Stough_Mouse_RNA_Virome_MRA_2019
  TeX MIT 3 2 0 1 Updated Mar 2, 2020

• Tomkovich_PPI_mSphere_2019
  TeX 1 0 0 0 Updated Jan 8, 2020

• 2019-12-02-Close_CodeReview_RSubsamplingShared

  Review of Will Close's code for subsampling shared files to a desired number of reads.
  R 4 0 0 2 Updated Dec 2, 2019

• Schloss_mothurRetro_AEM_2020
  TeX 0 0 0 0 Updated Nov 11, 2019

• mothurPipeline

  Forked from wclose/mothurPipeline

  Snakemake-based pipeline for analyzing 16S v4 data with mothur.
  Shell MIT 3 0 0 0 Updated Nov 7, 2019

• MiSeq_WetLab_SOP
  23 42 1 0 Updated Nov 7, 2019

• snakemake_cluster_tutorial

  Brief tutorial for using Snakemake to create and submit jobs on a HPC cluster.
  Python 0 1 0 0 Updated Oct 29, 2019

• exception-handling Archived

  Materials for a code review on exception handling in R for lab meeting.

  code-club lab-meeting
  R MIT 0 0 3 0 Updated Oct 29, 2019

• snakemake_riffomonas_tutorial Archived

  Forked from riffomonas/make_tutorial

  A snakemake tutorial for make users

  code-club
  R MIT 1 0 0 0 Updated Oct 7, 2019

• Hagan_monthly_journal_reports_2019
  R MIT 0 0 0 0 Updated Oct 2, 2019

• Sze_SCFACRC_mBio_2019
  R MIT 0 0 0 0 Updated Jun 5, 2019

• documenting-R Archived

  Materials for a code review on documenting R code.

  documentation rstats code-club roxygen2 lab-meeting
  R MIT 1 1 2 0 Updated May 24, 2019

• Sze_PCRSeqEffects_mSphere_2019

  The impact of DNA polymerase and number of rounds of amplification in PCR on 16S rRNA gene sequence data

  reproducible-research reproducible-paper
  TeX MIT 6 1 0 0 Updated Mar 1, 2019

• rf_pipeline
  R 1 0 1 0 Updated Feb 26, 2019

• Sze_CRCMetaAnalysis_mBio_2018

  meta-analysis microbiota reproducible-paper
  R MIT 2 4 0 0 Updated Sep 17, 2018

• Doherty_CDprediction_mBio_2017

  repo for the paper
  R 0 2 0 0 Updated Jul 17, 2018

• Flynn_LRColon_CancPrevRes_2017

  Kaitlin's repo for the LR KWS colon project
  HTML MIT 2 2 0 0 Updated Jul 17, 2018