Contents of section "Science" in suite "amber"

silx

Toolbox for X-Ray data analysis - Executables

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sim4

tool for aligning cDNA and genomic DNA

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sim4db

batch spliced alignment of cDNA sequences to a target genome

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simgrid-java

Java bindings for the SimGrid Toolkit

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siril

astronomical image processing tool

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skycat

Image visualization and access to catalogs and data for astronomy

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slang-xfig

produce plots and drawings through Xfig's fig2dev in S-Lang

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sleepyhead

Sleep tracking software with a focus on monitoring CPAP treatment

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smalr

interrogation of the methylation status of nucleotide sequencing reads

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smalt

Sequence Mapping and Alignment Tool

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smalt-examples

Sequence Mapping and Alignment Tool (examples)

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smithwaterman

determine similar regions between two strings or genomic sequences

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smrtanalysis

software suite for single molecule, real-time sequencing

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snakemake

pythonic workflow management system

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snap

location of genes from DNA sequence with hidden markov model

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snap-aligner

Scalable Nucleotide Alignment Program

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sniffles

structural variation caller using third-generation sequencing

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snpomatic

fast, stringent short-read mapping software

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snp-sites

Binary code for the package snp-sites

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soapaligner

aligner of short reads of next generation sequencers

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soapdenovo

short-read assembly method to build de novo draft assembly

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soapdenovo2

short-read assembly method to build de novo draft assembly

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soapsnp

resequencing utility that can assemble consensus sequence of genomes

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sortmerna

tool for filtering, mapping and OTU-picking NGS reads

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spaced

alignment-free sequence comparison using spaced words

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spades

genome assembler for single-cell and isolates data sets

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spatialite-bin

Geospatial extension for SQLite - tools

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spd

Synchrotron image corrections and azimuthal integration

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splash

Visualisation tool for Smoothed Particle Hydrodynamics simulation

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spoa

SIMD partial order alignment tool

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sprai

single-pass sequencing read accuracy improver

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spread-phy

analyze and visualize phylogeographic reconstructions

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squizz

Converter for genetic sequences and alignments

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sra-toolkit

utilities for the NCBI Sequence Read Archive

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srst2

Short Read Sequence Typing for Bacterial Pathogens

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ssake

genomics application for assembling millions of very short DNA sequences

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ssake-examples

example data for SSAKE, a genomic assembler of short reads

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sspace

scaffolding pre-assembled contigs after extension

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ssw-align

Smith-Waterman aligner based on libssw

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stacks

pipeline for building loci from short-read DNA sequences

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stacks-web

web interface for displaying loci from short-read sequences

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staden

DNA sequence assembly (Gap4/Gap5), editing and analysis tools

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staden-common

Architecture independent files for Staden

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staden-io-lib-examples

programs for manipulating DNA sequencing files (usage examples)

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staden-io-lib-utils

programs for manipulating DNA sequencing files

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stardata-common

Common framework to manage astronomy packages

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starplot

3-dimensional perspective star map viewer

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starpu-examples

Task scheduler for heterogeneous multicore machines - exs

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stellarium

real-time photo-realistic sky generator

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stellarium-data

Stellarium data files

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