Results for "Mapping"
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mrFAST: Micro Read Fast Alignment Search Tool
mrFAST is a read mapper that is designed to map short reads to reference genome with a special emphasis on the discovery of structural variation and segmental duplications. mrFAST maps short reads with respect to user defined error threshold, including indels up to 4+4 bp. This manual, describes ...Tags: Bioinformatics, FASTQ, Reads, NGS, Mapping, Alignment, Reference
2921 days ago
- segemehl is a software to map short sequencer reads to reference genomes. Unlike other methods, segemehl is able to detect not only mismatches but also insertions and deletions. Furthermore, segemehl is not limited to a specific read length and is able to map primer- or polyadenylation conta...
Tags: Bioinformatics, FASTQ, Reads, Map, Mapping, Segemehl, NGS
2907 days ago
MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping
MOSAIK is a stable, sensitive and open-source program for mapping second and third-generation sequencing reads to a reference genome. Uniquely among current mapping tools, MOSAIK can align reads generated by all the major sequencing technologies, including Illumina, Applied Biosystems SOLiD, Roch...Tags: Bioinformatics, NGS, MOSAIK, Algorithm, Short-Read, Mapping, Genomics, Map, Tool
2897 days ago
- Stampy is a package for the mapping of short reads from illumina sequencing machines onto a reference genome. It's recommended for most workflows, including those for genomic resequencing, RNA-Seq and Chip-seq. Stampy excels in the mapping of reads containing that contain sequence variation ...
Tags: Bioinformatics, NGS, Stampy, Reads, Mapping, Map
2897 days ago
Maq: Mapping and Assembly with Quality
Maq stands for Mapping and Assembly with Quality It builds assembly by mapping short reads to reference sequences. Maq is a project hosted by SourceForge.net. The project page is available athttp://sourceforge.net/projects/maq/. Maq is previously known as mapass2. Run Maq Now...Tags: Bioinformatics, Maq, Variation, Mapping, Quality, Reads, SV, NGS, Genome
2711 days ago
BIMA V3: an aligner customized for mate pair library sequencing
Summary: Mate pair library sequencing is an effective and economical method for detecting genomic structural variants and chromosomal abnormalities. Unfortunately, the mapping and alignment of mate pair read pairs to a reference genome is a challenging and time consuming process for most NGS alig...Tags: Bioinformatics, Analysis, Genome, Mapping, NGS, BIMA, Reads
2689 days ago
TMAP - torrent mapping alignment program General Notes
TMAP - torrent mapping alignment program General Notes TMAP is a fast and accurate alignment software for short and long nucleotide sequences produced by next-generation sequencing technologies. The latest TMAP is unsupported. To use a supported version, please see the TMAP version associat...Tags: Bioinformatics, Torrent, Mapping, Tools, TMAP
2580 days ago
- NGS data are just a bunch of sequences, you have no idea which region in the genome each sequences comes from, which gene it represents...To know that you have to align the sequences to the reference sequence. The reference sequence is in most cases the full genome sequence but sometimes, a libra...
Tags: Bioinformatics, Alignment, NGS, Mapping, Tutorial
2550 days ago
- BLASR (Basic Local Alignment with Successive Refinement) for mapping Single Molecule Sequencing (SMS) reads that are thousands to tens of thousands of bases long with divergence between the read and genome dominated by insertion and deletion error. Here is how I use the blasr to align PacBio rea...
Tags: Mapping, single, molecule, sequencing, reads, Basic, Local, Alignment, Successive, Refinement, BLASR
2164 days ago
- Magic-BLAST is a tool for mapping large next-generation RNA or DNA sequencing runs against a whole genome or transcriptome. Each alignment optimizes a composite score, taking into account simultaneously the two reads of a pair, and in case of RNA-seq, locating the candidate introns and adding up ...
Tags: NCBI, Magic-BLAST, Documentation, RNA-seq, Mapping, BLAST
2081 days ago
