bioinformatics.uconn.edu - This section explains some of the commonly used file formats in bioinformatics. The information provided here is basic and designed to help users to distinguish the difference between different formats. Please refer user manual or other information...
homes.sice.indiana.edu - Machine learning techniques have been successful in analyzing biological data because of their capabilities in handling randomness and uncertainty of data noise and in generalization. In this class, we will learn basics about probabilistic models...
carpentries-incubator.github.io - A lesson introducing the Snakemake workflow system for bioinformatics analysis.
Prerequisites
This is an intermediate lesson and assumes learners have already done some bioinformatics:
Familiarity with the BASH command shell, including...
jgi.doe.gov - The guides describe the function, syntax, and typical use-cases of the tools; for a complete list of parameters, run the tool’s shellscript or open it with a text editor. Most tools do not currently have a guide, but each has shellscripts with...
There are many R software and bioconductor packages for NGS data analysis, some of them are as follows
Biostrings
The Biostrings package from Bioconductor provides an advanced environment for efficient sequence management and analysis in R. It...