skembel

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phylocom

Steven Kembel's starred repositories

OpenRCT2

An open source re-implementation of RollerCoaster Tycoon 2 🎢

Language:C++GPL-3.013370 202 12475

An-Introduction-To-Applied-Bioinformatics

Interactive lessons in bioinformatics.

Language:PythonNOASSERTION796 73 133

tidybayes

Bayesian analysis + tidy data + geoms (R package)

Language:RGPL-3.0726 24 307

statements

Successful Job Applications and Grants

NOASSERTION677 68 1

rpackages

R package development - the Leek group way!

dada2

Accurate sample inference from amplicon data with single nucleotide resolution

Language:RLGPL-3.0469 40 1978

genomicspapers

The Leek group guide to genomics papers

reviews

Writing reviews of academic papers

GPL-2.0467 36 3

atlas

ATLAS - Three commands to start analyzing your metagenome data

Language:PythonBSD-3-Clause372 15 426

aRrgh

A newcomer's (angry) guide to data types in R

Language:CSSNOASSERTION307 34 21

kaiju

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

Language:CGPL-3.0264 14 271

swarm

A robust and fast clustering method for amplicon-based studies

Language:C++AGPL-3.0123 14 178

ggvegan

ggplot-based plots for vegan

Language:RGPL-2.0110 21 20

picrust

Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUST): Official repository for software and unit tests

Language:PythonGPL-3.090 19 123

pairwiseAdonis

Pairwise multilevel comparison using adonis

Language:RGPL-3.067 5 42

BURST

An ultrafast optimal aligner for mapping large NGS data to large genome databases.

Language:CAGPL-3.057 5 35

SHOGUN

SHallow shOtGUN profiler

Language:PythonAGPL-3.054 8 32

phylocom

Software for the Analysis of Phylogenetic Community Structure and Character Evolution, with Phylomatic

Language:C42 15 35

idemp

Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files

Language:C++GPL-2.031 3 17

nesoni

High throughput sequencing analysis tools

Language:PythonGPL-2.030 6 9

MRFcov

Markov random fields with covariates

Language:R23 3 11

shotmap

A Shotgun Metagenome Annotation Pipeline

Language:PerlGPL-2.023 8 8

opal

Metagenomic binning using low-density hashing a support vector machine

Language:PythonGPL-3.021 4 4

q2oligo

Convert QIIME files into Oligotyping subsets.

Language:Python1400

phylocomr

Phylocom R interface

Language:HTMLNOASSERTION14 5 32

OpenMetagenomeToolkit

Making Metagenomes Manageable

Language:PerlGPL-3.012 4 2

QB-2017

Spring 2017

Language:HTMLMIT8 6 2

addTaxa

An R package to add missing taxa to molecular phylogenies

Language:R700

dualingTrees-pkg

Visualize phylogenetic interactions

Language:R4 5 1

Baxter_WildMice_AEM_2014

R notebook describing data analysis for "Intra- and inter-individual variation masks inter-species variation in the microbiota of sympatric Peromyscus populations"

MIT3 90