TRANSIT MANUAL

TRANSIT Overview
Installation
Running TRANSIT
Quality Control
File Formats for Transit

TnSeq ANALYSIS METHODS

Normalization
tnseq_stats
Gumbel
Griffin
TTN-Fitness
Tn5Gaps
HMM
Resampling
Mann-Whitney U-test (utest)
ANOVA
corrplot
heatmap
Genetic Interactions
ZINB
Pathway Enrichment Analysis

TRANSIT Tutorials

Tutorial: Genetic Interactions Analysis
Tutorial: Normalize datasets
Tutorial: Export datasets
Console Mode Cheat-Sheet

TPP Manual

TPP Overview
Installation
Running TPP
Mapping to Genomes with Multiple Contigs
Overview of Data Processing Procedure
Statistics

Code Documentation

pytransit package
Example Scripts (for Developers)

TRANSIT

pytransit package
View page source

pytransit package

Submodules

pytransit.norm_tools module

pytransit.stat_tools module

pytransit.tnseq_tools module

pytransit.transit_tools module

Module contents

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© Copyright 2015, Michael A. DeJesus & Thomas R. Ioerger.

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