Parallel
- ParDRe 1.1.5 – Faster Parallel Duplicated Reads Removal Tool for Sequencing Studies
- parSRA 1.0 – Portable Framework for the Parallel Execution of Short Read Aligners
- ABySS 1.9.0 – de novo, parallel, paired-end Sequence Assembler
- CUDASW++ 3.1.1 – Parallel Smith Waterman Protein database search algorithm
- PEANUT 1.3.7 – The ParallEl AligNment UTility
- smallWig – Parallel Compression of RNA-seq WIG Files
- RAxML 8.2.3 / RAxML Workbench 1.0 – Sequential and Parallel Maximum Likelihood based inference of large phylogenetic trees
- GRAPES – SMP Querying system for Efficient Parallel Subgraph Isomorphism in databases of Graphs
- SwiftLink – Parallel MCMC Linkage Analysis
- Ray 2.3.1 – Parallel Genome Assemblies for Parallel DNA sequencing
- RFCoil – Predictor of Parallel Dimeric and Trimeric Coiled Coils
- ACME v1 – Efficient Parallel Motif Extraction from Very Long Sequences
- ERA v1 – Efficient Serial and Parallel Suffix Tree Construction
- qPMS9 – Parallel Algorithm for Quorum Planted Motif Search
- Parallel-QC 1.0 – A Parallel Quality Control computational engine for NGS data
- RPMCMC 0.2 – Repulsive Parallel MCMC Algorithm
- PBOOST – Parallel Permutation Tests in Genome-wide Association Studies
- PLAST 1.0 – Parallel Local Alignment Search Tool for Database Comparison
- BitPAl – Bit-parallel Alignment
- parastructure 0.9 – Run the Population Genetics software STRUCTURE in Parallel on a Cluster
- HECTOR 1.0 – A Parallel Homopolymer Spectrum based 454 Error Corrector
- PaRFR – Parallel Random Forest Regression for Hadoop
- Musket 1.1 – Parallel and Scalable Multistage K-mer Spectrum based Error Corrector for Illumina Sequence data
- CUDA-EC 1.02 – Fast Parallel Error Correction tool for Short Reads
- ALEXA-Seq 1.17 – Alternative Expression Analysis by massively parallel RNA Sequencing
- shellfish – Parallel PCA and data processing for Genome-wide SNP data
- JESAM 0.8.1 – Parallel Processing DNA Sequence Comparison and Clustering
- pClust 1.0 – Parallel Identification of Dense Protein Clusters
- ParaAT 1.0 – Parallel Alignment & back-Translation
- Pasqual 1.0 – Parallel de Novo Genome Sequence Assembler
- Parallel T-Coffee 1.914 – Parallel Multiple Sequence Aligner based on TCoffee
- MSAProbs 0.9.7 – Parallel and Accurate Multiple Sequence Alignment
- PTS 1.0.2 – Parallel Tagged Sequencing
- ParaSAM – Parallel Version of the SAM Algorithm