#Mathematica 11.2 compatibility software

Suite of codes for electronic-structure calculations and nanoscale materials modeling Software package for the evaluation of quasiparticle properties and optical responses of materials and moleculesДЄnalysis tools for interpreting protein mass spectrometry data Suite of biomolecular simulation programsДЄSE is an Atomic Simulation Environment written in the Python programming language with the aim of setting up, steering, and analyzing atomistic simulations.Д«erkeleygw/1.2.0+intelmpi-5.1+intel-16.0 (default), berkeleygw/1.2.0+openmpi-2.0+intel-16.0 Phylogenetic penalized likelihood program Tools written in C using htslib for manipulating next-generation sequencing data.

#Mathematica 11.2 compatibility software

The Rosetta software suite includes algorithms for computational modeling and analysis of protein structures. MUSCLE is one of the best-performing multiple alignment programs This program corrects whole frame image motion recordded with dose fractionated image stack. This program corrects anisotropic image motion at the single pixel level across the whole frame, suitable for both single particle and tomographic images. Multiple alignment program for amino acid or nucleotide sequencesД«ioinformatics tool for microbial ecology community HMMER is used for searching sequence databases for homologs of protein sequences, and for making protein sequence alignments.Д¬ library for high-throughput sequencing data formats originally distributed with samtools. Transcriptome assembly and differential expression analysis for RNA-Seq.Д¬ommand-line tools for processing biological sequencing dataДЄ quality control tool for high throughput sequence data.ДЇastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences.ДЄ collection of command-line tools for FASTA sequence files preprocessingДЇsl/5.0.11, fsl/5.0.9, fsl/6.0.0, fsl/6.0.1 (default), fsl/6.0.3, fsl/6.0.4ДЇSL is a comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data. Capable of converting BCL files from Illumina sequencing systems to FASTQ file formats. Library for core calculations with phylogenetics packagesД«east/1.8, beast/2.3 (default), beast/2.6.2Д¬omputational pipeline for identfying mutations in short-read DNA re-sequencing data for haploid microbial genomes.Д¬ellranger/2.1.1 (default), cellranger/3.0.0ДЄn analysis pipeline for processing Chromium single-cell RNA-sequences. Sequencing software used to both demultiplex data and convert BCL files to FASTQ file formats for downstream analysis. Picard/2.18.15, picard/2.18.2, picard/2.21.8 (default)ДЄ set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.Д«CFtools are meant as a faster replacement for most of the perl vcftools commands originally distributed with samtools. It supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations. Software for genome-wide complex trait analysis.ДЄ high-performance visualization tool for interactive exploration of large, integrated genomic datasets. Genome Analysis Toolkit: variant siscovery in high-throughput sequencing data Accurate quantification of gene and isoform expression from RNA-Seq data.Д«LAST+: command-line tools for Basic Local Alignment SearchД«urrow-Wheeler Aligner for pairwise alignment between DNA sequences.ДЇast, accurate and versatile sequence classification system