You are now in the directory "biology".
Software for the biological sciences
Here are the one-line descriptions for each of the 52 items in this directory:
| R-popbio-2.7: Construction and Analysis of Matrix Population Models | |
| arka-0.11nb2: Graphic interface for the programs from the GP package | |
| azara-2.7nb8: Programs to process and view NMR data | |
| bcftools-1.10.2nb1: Tools for manipulating BCF and VCF variant call files | |
| bioperl-1.7.7: Perl tools for computational molecular biology | |
| bodr-9nb11: Blue Obelisk Data Repository | |
| bwa-0.7.17nb4: Map low-divergent sequences against a large reference genome | |
| canu-1.8nb7: Single molecule sequence assembler for genomes large and small | |
| cdhit-4.6.4nb4: Clustering and comparing protein or nucleotide sequences | |
| chemical-mime-data-0.1.94: Chemical mime and file type support for desktops | |
| chemtool-1.6.14nb15: Program for drawing organic molecules | |
| clustalw-2.1: General purpose multiple alignment program for DNA or proteins | |
| coalesce-1.5.0.2nb1: Estimates effective population size and mutation rate | |
| fastDNAml-1.2.2: Program derived from Joseph Felsenstein's version 3.3 DNAML | |
| fastp-0.20.0: Ultra-fast all-in-one FASTQ preprocessor | |
| fluctuate-1.4: Estimation of population growth rate | |
| gabedit-2.4.8nb11: Graphical User Interface to computational chemistry packages | |
| genesplicer-20030403: Computational Method for Splice Site Prediction | |
| glimmer-2.13nb1: System for finding genes in microbial DNA | |
| gnome-chemistry-utils-0.14.16nb3: GChemPaint, a 2D chemical editor and other programs | |
| gp-0.26: Manipulate DNA/RNA sequence in a Unix fashion | |
| gromacs-4.5.5nb10: Molecular dynamics package | |
| hisat2-2.1.0.23nb3: Alignment program for mapping next-generation sequencing reads | |
| hmmer-3.0: Implementation of profile HMM software for protein sequence analysis | |
| htslib-1.10.2nb2: C library for high-throughput sequencing data formats | |
| kallisto-0.46.1: Quantify abundances of transcripts from RNA-Seq data | |
| lucy-1.20: Sequence Cleanup Program | |
| mopac-7.0nb1: Molecular energy calculation program | |
| mpqc-2.3.1nb9: The Massively Parallel Quantum Chemistry Program | |
| mummer-3.20nb8: System for aligning whole genome sequences | |
| ncbi-blast+-2.8.1nb10: NCBI implementation of Basic Local Alignment Search Tool | |
| nut-15.8: Record what you eat and analyze your meals | |
| openbabel-3.1.1nb1: Chemistry file translation program | |
| p5-Bio-ASN1-EntrezGene-1.73: Regular expression-based Perl Parser for NCBI Entrez Gene | |
| pdbalign-20030812: Prediction of Protein Secondary Structure and Active Sites | |
| phylip-3.69: Phylogeny Inference Package | |
| plink-1.07: Whole-genome association analysis toolset | |
| plinkseq-0.08nb3: C/C++ library for working with human genetic variation data | |
| primer3-2.3.6: Design PCR primers | |
| profit-2.2nb1: Performs least squares fits of two protein structures | |
| puzzle-5.2: Maximum likelihood analysis of molecular sequence data | |
| py37-biopython-1.74: Python libraries for computational molecular biology | |
| py27-mol-1.5.0.1nb7: Molecular Visualization System | |
| py37-pydicom-1.3.0: Pure python package for working with DICOM files | |
| rasmol-2.7.3nb2: Molecular Graphics Visualisation Tool | |
| samtools-1.10nb1: Tools for manipulating sequence alignment maps | |
| sewer-2.6nb2: SEquence Analysis using WEb Resources | |
| stacks-2.2nb3: Software pipeline for building loci from short-read sequences | |
| stride-20030804: Protein secondary structure assignment from atomic coordinates | |
| Trimmomatic-0.38: Flexible read trimming tool for Illumina NGS data | |
| vsearch-2.13.4: Versatile open-source tool for metagenomics | |
| xylem-1.8.7: Tools for manipulation of genetic databases |