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Results for "indels"

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• • Rahul Nayak@rahul

  

  Bioinformatics Protocols

  ...Detection Basic Galaxy Tutorial Variant Detection tutorial In this tutorial we cover the concepts of detecting small variants (SNVs and indels) in human genomic DNA using a...

  3666 days ago

• • Rahul Nayak@rahul

  

  Pilon

  ...nput genome and the evidence in the reads. It then attempts to make improvements to the input genome, including: Single base differences Small indels Larger indel or block substi...

  3022 days ago

• • Neelam Jha@neelam

  

  mrFAST: Micro Read Fast Alignment Search Tool

  ...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, de...

  2945 days ago

• • Jit@jit.aber

  

  KisSplice

  ...hat enables to analyse RNA-seq data with or without a reference genome. It is an exact local transcriptome assembler that allows to identify SNPs, indels and alternative splicing even...

  2833 days ago

• • Jit@jit.aber

  

  Circleator

  ...nes in a GenBank flat file. Highlighting differences and/or similarities in gene content between related organisms. Comparing SNPs and indels between closely-related strai...

  2519 days ago

• • Jit@jit.aber

  

  Magic-BLAST: a tool for mapping large next-generation RNA or DNA sequencing runs against a whole genome or transcriptome.

  ...g of mismatches near the edges of the reads, which avoids accumulating artefactual mismatches near splice sites and is needed to distinguish short indels from substitutions near the e...

  2335 days ago

• • Jit@jit.aber

  

  Breakpointer: using local mapping artifacts to support sequence breakpoint discovery from single-end reads

  ...oduced by next generation sequencing (NGS). It adopts a heuristic method in searching for local mapping signatures created by insertion/deletions (indels) or more complex structural v...

  2167 days ago

• • Jit@jit.aber

  

  Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications.

  Manta calls structural variants (SVs) and indels from mapped paired-end sequencing reads. It is optimized fo...rs. Manta discovers, assembles and scores large-scale SVs, medium-sized indels and large insertions within a...

  2182 days ago

• • Jit@jit.aber

  

  WhatsHap: fast and accurate read-based phasing

  ... WhatsHap: fast and accurate read-based phasing) Works well with Illumina, PacBio, Oxford Nanopore and other types of reads It phases SNVs, indels and even “complex&rdquo...

  2182 days ago

• • Rahul Nayak@rahul

  

  Nanopolis: polish a genome assembly

  ...ore sequencing data. Nanopolish can calculate an improved consensus sequence for a draft genome assembly, detect base modifications, call SNPs and indels with respect to a reference g...

  2124 days ago

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