BamBam

BamBam includes numerous tools for analyzing DNA next-generation sequencing data. Tools are provided for calling SNPs and indels, identifying large scale deletions, tabulating counts of mapped reads, methylation analysis, and more.

Depends on SAMtools (http://samtools.sourceforge.net/) and BAMtools (https://github.com/pezmaster31/bamtools). Also uses BioPerl, which is included in the download tarball.

Features

call SNPs and indels
impute genotypes
build consensus sequences
tabulate counts of mapped reads (RNA-seq)
infer haplotype phasing with K-means clustering
analyze DNA methylation (bisulfite-sequencing)

Project Activity

See All Activity >

License

MIT License

Follow BamBam

BamBam Web Site

Other Useful Business Software

Custom VMs From 1 to 96 vCPUs With 99.95% Uptime

General-purpose, compute-optimized, or GPU/TPU-accelerated. Built to your exact specs.

Live migration and automatic failover keep workloads online through maintenance. One free e2-micro VM every month.

Start Free

Rate This Project

User Ratings

5.0 out of 5 stars

★★★★★

★★★★

★★★

★★

★

ease 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5

features 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5

design 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5

support 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5

User Reviews

Filter Reviews:

All

thula9578 Posted 2024-12-22
5 out of 5 stars

cool

Additional Project Details

Operating Systems

BSD, Linux

Intended Audience

Science/Research

Programming Language

C++, Perl

Related Categories

Perl Bio-Informatics Software, C++ Bio-Informatics Software

Registered

2013-06-26

Similar Business Software

Genome Analysis Toolkit (GATK)

Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. The GATK...

See Software for Genome Analysis Toolkit (GATK)
Photo51

Photo51 is a web-based molecular biology suite for designing and analyzing DNA and protein sequences. It supports plasmid design, automated feature annotation, virtual cloning, PCR primer design and virtual agarose gel electrophoresis. Researchers can import sequence files and use an integrated...

See Software for Photo51
MEGA

MEGA (Molecular Evolutionary Genetics Analysis) is a powerful and user-friendly software suite designed for analyzing DNA and protein sequence data from species and populations. It facilitates both automatic and manual sequence alignment, phylogenetic tree inference, and evolutionary hypothesis...

See Software for MEGA
OmnibusX

In the world of biological data science, navigating vast and complex datasets can be a daunting task. Our software toolkit is designed to empower you by accelerating analysis, promoting accessibility, and providing comprehensive visualization tools to help you make sense of these intricate...

See Software for OmnibusX
Geneious

Geneious Prime makes bioinformatics accessible by transforming raw data into visualizations that make sequence analysis intuitive and user-friendly. Simple sequence assembly and easy editing of contigs. Automatic annotation for gene prediction, motifs, translation, and variant calling. Genotype...

See Software for Geneious
Edison Analysis

Edison Analysis is a next-generation scientific data-analysis agent built by Edison Scientific. It is the analytical engine underpinning their AI Scientist platform, Kosmos, and it’s available both on Edison’s platform and via API. Edison Analysis performs complex scientific data analysis by...

See Software for Edison Analysis