SumatraPDF reader

Lightweight CLI download accelerator

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RNA-seq aligner

A versatile pairwise aligner for genomic and spliced nucleotide sequences

Near-optimal RNA-Seq quantification

Align proteins to genomes with splicing and frameshift

Long read / genome alignment software

a python package for fast random access to sequences from plain and gzipped FASTA/Q files

MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the program, please see the home page:

Eigen tools by Nick Patterson and Alkes Price lab

A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too

Detect and visualize target mutations by scanning FastQ files directly

Fast random access of gzip files in Python

A collection of tools for Multiple Alignments of DNA, RNA, Protein Sequence

Tools for working with BUS files

Copy number vaiation detection from SNP arrays

An tandem mass spectrometry (MS/MS) sequence database search tool.

extract 454 Genome Sequencer reads from a SFF file and convert them into a FASTQ formatted output

Finding Maximal Exact Matches (MEMs) using a Sampled LCP Array