Search Results for "alignment"

The driveinfo command gets detailed information about a specific drive. The script parses property lists emitted by the diskutil command to compile the information. If the drive contains a GUID Partition Table (GPT), then detailed information about each partition is also included in a tabular form. This also allows free space on a drive, using a GPT, to be identified. The gpt command can be used to view the actual stored GPT values in in a tabular form. Starting with macOS, the gpt...

PTESFinder is a computational pipeline for identifying Post-transcriptional Exon Shuffling events from high-throughput RNAseq data. PTESFinder leverages the power of established RNASeq tools and systematically excludes all known classes of false positive structures by applying stringent filters designed to specifically target these false positives. PTESFinder compares alignment qualities of reads mapping to putative PTES structures with qualities of the same reads when mapped to genomic regions...

SPANDx is your one-stop tool for identifying SNP and indel variants in haploid genomes using NGS data. SPANDx performs alignment of raw NGS reads against your chosen reference genome or pan-genome, followed by accurate variant calling and annotation, and locus presence/absence determination. SPANDx produces SNP and indel matrices for downstream phylogenetic analyses. Annotated, genome-wide SNPs and indels can also be identified if specified, and are output in human readable format...

ADOMA stands for: Alternative Display Of Multiple Alignment. ADOMA can create four different displays of a multiple sequence alignment: a ClustalW alignment in HTML format, a simplified ClustalW alignment in HTML and/or txt format and a colored ClustalW alignment in HTML format. For examples of these outputfiles check the screenshots. ADOMA uses ClustalW to create the multiple alignment from DNA or protein sequences and displays them slightly different than the normal output of ClustalW. ADOMA...

... sequence alignment and deposits sequences into a fasta sequence file for downstream molecular evolutionary analysis.

NGSpeAnalysis NGSpeAnalysis is a pipeline using open-source tools which can implement a set of pair ended Next-generation sequencing analysis, include short reads alignment, high-quality variation genotype calling and variants annotation.

Various tools for creating annotated parallel corpora including pre-trained tagging and parsing models for various languages, sentence alignment tools and word alignment tools. Uplug also includes a web-based interface for interactive sentence and word alignment and scripts for indexing and querying parallel corpora using the Corpus Work Bench CWB. Download 'uplug-main' first and then add other packages.

FFP (Feature frequency profile) is an alignment free comparison tool for phylogenetic analysis and text comparison. It can be applied to nucleotide sequences, complete genomes, proteomes and even used for text comparison.

TrimAl is a bioinformatic tool that cleans multiple protein or nucleotide sequence alignment. The clean alignment (as a result of the TrimAl cleaning process) is used for phylogenetic reconstruction. TrimAl improves the quality of the reconstructed trees