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Results for "aligned"

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• • Rahul Nayak@rahul

  

  Bioinformatics Protocols

  ...tically-based variant detection tools:* SAMtools: Mpileup* GATK: Unified Genotyper* FreeBayesEach of these tools takes as its input a BAM file of aligned reads and generates a list of...

  3669 days ago

• • Rahul Nayak@rahul

  

  Pilon

  ...on among strains, including large event detection Pilon requires as input a FASTA file of the genome along with one or more BAM files of reads aligned to the input FASTA file. Pilo...

  3025 days ago

• • Jit@jit.aber

  

  HiCdat

  HiCdat: a fast and easy-to-use Hi-C data analysis tool HiCdat is easy-to-use and provides solutions starting from aligned reads up to in-depth analyses. Importantly, HiCdat is focuss...

  3021 days ago

• • Archana Malhotra@archana

  

  LAST

  ...Handle big sequence data, e.g: Compare two vertebrate genomes Align billions of DNA reads to a genome Indicate the reliability of each aligned column. Use sequence quality...

  2995 days ago

• • Jit@jit.aber

  

  valet

  ...nbsp;validation of metagenomic assemblies. VALET checks a number of properties that should hold true for a correct assembly (e.g., mate-pairs are aligned at the correct distance from...

  2798 days ago

• • Bulbul@bulbul

  

  LAST

  ...sp;sequence data, e.g: Compare two vertebrate genomes Align billions of DNA reads to a genome Indicate the reliability of each aligned column. Use sequence quality...

  2710 days ago

• • Bulbul@bulbul

  

  pyScaf

  ...caf uses synteny to the genome of closely related species in order to order contigs and estimate distances between adjacent contigs. Contigs are aligned globally (end-to-end) onto re...

  2710 days ago

• • Jit@jit.aber

  

  Mauve: a system for constructing multiple genome alignments in the presence of large-scale evolutionary events such as rearrangement and inversion

  ...gorithmic techniques that scale well in the lengths of sequences being aligned. For example, a pair of Y. pestis genomes can be aligned in under a minute, while a gr...

  1987 days ago

• • Jit@jit.aber

  

  FSA: Fast Statistical Alignment

  ...play), can display the intermediate alignments produced by FSA, where each character is colored according to the probability that it is correctly aligned (see the picture and mov...

  2661 days ago

• • Jit@jit.aber

  

  Heap: a highly sensitive and accurate SNP detection tool for low-coverage high-throughput sequencing data

  Heap, that enables robustly sensitive and accurate calling of SNPs, particularly with a low coverage NGS data, which must be aligned to the reference genome sequences in advance. To r...

  2224 days ago

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