Results for "Illumina"

Tags

  • LoRDEC: a hybrid error correction program for long, PacBio reads

    LoRDEC is a program to correct sequencing errors in long reads from 3rd generation sequencing with high error rate, and is especially intended for PacBio reads. It uses a hybrid strategy, meaning that it uses two sets of reads: the reference read set, whose error rate is assumed to be small, and ...

    Tags: Bioinformatics, LoRDEC, Hybrid, Error, Correction, Program, Long, PacBio, Reads, Illumina

    2544 days ago

  • QuorUM: An Error Corrector for Illumina Reads

    Illumina Sequencing data can provide high coverage of a genome by relatively short (most often 100 bp to 150 bp) reads at a low cost. Even with low (advertised 1%) error rate, 100 × coverage Illumina data on average has an error in some read at every base in the genome. These errors make ha...

    Tags: QuorUM, Error, Corrector, Illumina, Reads

    2332 days ago

  • ONT assembly and Illumina polishing pipeline

    This pipeline performs the following steps: Assembly of nanopore reads using Canu. Polish canu contigs using racon (optional). Map a paired-end Illumina dataset onto the contigs obtained in the previous steps using BWA mem. Perform correction of contigs using p...

    Tags: ONT, assembly, Illumina, polishing, pipeline

    2317 days ago

  • iSeq 100-compact benchtop system https://www.genengnews.com/gen-news-highlights/illuminas-push-to-democratize-genomics-with-the-iseq-100/81255358 #NGS #NewMachine #Illumina

    Tags: NGS, NewMachine, Illumina

    2268 days ago

  • BFC: a standalone high-performance tool for correcting sequencing errors from Illumina sequencing data

    BFC is a standalone high-performance tool for correcting sequencing errors from Illumina sequencing data. It is specifically designed for high-coverage whole-genome human data, though also performs well for small genomes. The BFC algorithm is a variant of the classical spectrum alignment algor...

    Tags: BFC, standalone, high-performance, tool, correcting, sequencing, errors, Illumina, sequencing, data

    2128 days ago

  • Efficiency of #PacBio long read #correction by 2nd generation #Illumina sequencing https://www.sciencedirect.com/science/article/pii/S0888754317301660

    Tags: PacBio, correction, Illumina

    2030 days ago

  • PANDASEQ is a program to align Illumina reads, optionally with PCR primers embedded in the sequence, and reconstruct an overlapping sequence.

    Development packages for zlib and libbz2 are needed, as well as a standard compiler environment. On Ubuntu, this can be installed via: sudo apt-get install build-essential libtool automake zlib1g-dev libbz2-dev pkg-config On MacOS, the Apple Developer tools and Fink (or MacPorts or Brew) must...

    Tags: PANDASEQ, program, align, Illumina, reads, PCR, primers, sequence, reconstruct, overlapping, sequence

    2015 days ago

  • Illumina to Acquire Pacific Biosciences for Approximately $1.2 Billion !

    Illumina and Pacific Biosciences announced they have signed an agreement for Illumina to acquire Pacific Biosciences at a price of $8.00 per Pacific Biosciences share in an all-cash transaction.The agreement has been approved by the board of directors of Illumina and Pacific Biosciences. The acqu...

    Tags: Illumina, Acquire, Pacific, Biosciences, $1.2, Billion

    1973 days ago

  • SViper: Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.

    Call sviper ~$ ./sviper -s short-reads.bam -l long-reads.bam -r ref.fa -c variants.vcf -o polished_variants This will output a polished_variants.vcf file, that contains all the refined variants. Sometimes it is helpful to look at the polished sequence, e.g. with the IGV browser. In...

    Tags: SViper, Swipe, Structural, Variants, ONT, PacBio, reads, Illumina

    1558 days ago

  • De novo Genome Assembly for Illumina Data

    Written and maintained by Simon Gladman - Melbourne Bioinformatics (formerly VLSCI) Protocol Overview / Introduction In this protocol we discuss and outline the process of de novo assembly for small to medium sized genomes. https://www.melbournebioinformatics.org.au/tutorials/tutorials/assembl...

    Tags: De novo, Genome, Assembly, Illumina, Data

    1529 days ago