RNAlysis is a python package providing modular analysis pipeline for RNA sequencing data from C. elegans. The package includes various filtering methods, data visualisation, clustering analyses, enrichment anslyses and exploratory analyses.
RNAlysis allows you to perform filtering and analyses at any order you wish. It has the ability to save or load your progress at any given phase, Wand document the order of operations you performed in the saved file names.
RNAlysis work with HTCount files from python's HTSeq and with DESeq files from R's DESeq2.
- Documentation: https://guyteichman.github.io/RNAlysis
- Filtering of DESeq and HTCount files by counts, biotype, change direction, significance and more.
- Normalization of HTCount files
- Exploratory plots
- GO, Tissue and Phenotype enrichment analysis
- Enrichment analysis for custom feature characteristics
- numpy
- pandas
- matplotlib
- seaborn
- tissue_enrichment_analysis
- statsmodels
- sklearn
Use the following command in the python prompt:
pip install RNAlysisThis package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.