Assists for analyzing and visualization of 16S rRNA amplicon data. ampvis intends to facilitate the process of performing ordination and handles seven ordination methods used within the field of microbial ecology. This software integrates several functions such as generating advanced ordination plots with a single function call., filtering of low abundant operational taxonomic units (OTU) or measuring site and species scores.
Consists of a standardized analysis software. HTSSIP simplifies reproducible analyses on high throughput sequencing with stable isotope probing (HTS-SIP) datasets and direct cross-study comparisons. It is based on an ordination approach and an approach that expresses beta-diversity between corresponding treatment and control fractions as a function of their buoyant density (BD). This tool allows the evaluation of isotope incorporation at the community-level.
Assists users in generating publication ready taxonomic pie chart images from QIIME. Prepare_taxa_charts.py is a program that helps in: (i) mapping sample name and the corresponding pie chart images and make a Python dictionary out of it, (ii) creating a user defined output folder to store the publication ready images, (iii) copying the pie chart and legend images into the user-defined folder and (iv) identifying the taxonomic pie chart and legend pair and associate them with corresponding sample identifier.
Permits users to examine the microbial community in the context of categorical and numerical metadata. Mian is a web-based data discovery platform that allows interactive visualization or running of a suite of statistical and feature selection tools on the microbiome to identify important taxonomic groups in the context of any categorical or numerical metadata. This program packages several commonly used visualization, feature selection, and diversity tools.
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