Purdue University

IBM SPSS Statistics is a powerful statistical software platform. It offers a user-friendly interface and a robust set of features that lets your organization quickly extract actionable insights from your data. Advanced statistical procedures help ensure high accuracy and quality decision making. All facets of the analytics lifecycle are included, from data preparation and management to analysis and reporting.

SQLite3 is an SQL database engine in a C library. Programs that link the SQLite3 library can have SQL database access without running a separate RDBMS process.

SqueezeMeta is a fully automated metagenomics pipeline, from reads to bins.

SQUID is designed to detect both fusion-gene and non-fusion-gene transcriptomic structural variations from RNA-seq alignment.

The NCBI SRA Toolkit enables reading dumping of sequencing files from the SRA database and writing loading files into the .sra format.

SRA-Toolkit is a collection of tools and libraries for using data in the INSDC Sequence Read Archives

Srst2 is designed to take Illumina sequence data, a MLST database and/or a database of gene sequences (e.g. resistance genes, virulence genes, etc) and report the presence of STs and/or reference genes.

Stacks is a software pipeline for building loci from RAD-seq.

STAR: ultrafast universal RNA-seq aligner.

STAR-Fusion is a component of the Trinity Cancer Transcriptome Analysis Toolkit (CTAT).

staramr scans bacterial genome contigs against the ResFinder, PointFinder, and PlasmidFinder databases (used by the ResFinder webservice and other webservices offered by the Center for Genomic Epidemiology) and compiles a summary report of detected antimicrobial resistance genes.

Stata is a complete, integrated software package that provides all your data science needs?data manipulation, visualization, statistics, and automated reporting.

Stata/MP is the fastest and largest edition of Stata. Stata is a complete, integrated software package that provides all your data science needs?data manipulation, visualization, statistics, and automated reporting.

STREAM (Single-cell Trajectories Reconstruction, Exploration And Mapping) is an interactive pipeline capable of disentangling and visualizing complex branching trajectories from both single-cell transcriptomic and epigenomic data.

Stringdecomposer is a tool for decomposition centromeric assemblies and long reads into monomers.

Stringtie employs efficient algorithms for transcript structure recovery and abundance estimation from bulk RNA-Seq reads aligned to a reference genome. It takes as input spliced alignments in coordinate-sorted SAM/BAM/CRAM format and produces a GTF output which consists of assembled transcript structures and their estimated expression levels (FPKM/TPM and base coverage values).

STRique is a python package to analyze repeat expansion and methylation states of short tandem repeats (STR) in Oxford Nanopore Technology (ONT) long read sequencing data.

Structure is a software package for using multi-locus genotype data to investigate population structure.

Subread carries out high-performance read alignment, quantification and mutation discovery. It is a general-purpose read aligner which can be used to map both genomic DNA-seq reads and DNA-seq reads.

Subversion is an open source version control system.