Results for "Reads"

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  • COPE: an accurate k-mer-based pair-end reads connection tool to facilitate genome assembly

    ...ed Connecting Overlapped Pair-End (COPE) reads, to connect overlapping pair-end reads using k-mer frequencies. We e...our tool on 30× simulated pair-end reads from Arabidopsis thaliana wit...tool FLASH. When COPE is applied to real reads for genome assembly, the resu...

    11 days ago

  • LINKS

    ...S is a genomics application for scaffolding genome assemblies with long reads, such as those produced by Ox...d high-quality draft genome assemblies with any long sequences (eg. ONT reads, PacBio reads, another draft...

    408 days ago

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

    ...specially intended for PacBio reads. It uses a hybrid strategy, m...ning that it uses two sets of reads: the reference read set, whos.... Usually, errors in PacBio reads include many insertions and d...(DBG) representing the short reads, and seeks a corrective seque...

    251 days ago

  • quickmerge: A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.

    ...s based on long molecule sequences, often with dramatic outcomes. The program uses information from assemblies made with illumina short reads and PacBio long reads to improve contiguities of an...

    363 days ago

  • cutadapt

    ...of unwanted sequence from your high-throughput sequencing reads. Cleaning your data in this way is often required: Reads from small-RNA sequencing con...sample, but often you don’t want them to be in your reads. Cutadapt helps with these t...

    583 days ago

  • Ribbon: Visualizing complex genome alignments and structural variation:

    Ribbon can be used for long reads, short reads, paired-end reads, and assembly/genome alignments. Instructions for each data format are available by clicking on "instructions" in each tab...

    18 days ago

  • A5-miseq

    ...accurate results, A5-miseq requires Illumina data with certain characteristics. A5-miseq will likely not work well with Illumina reads shorter than around 80nt, or reads where the base qualities are...

    486 days ago

  • WgSim

    Reads simulator Wgsim is a small tool for simulating sequence reads from a reference genome. It is able to simulate diploid genomes...SNPs and insertion/deletion (INDEL) polymorphisms, and simulate reads with uniform substitution seq...

    542 days ago

  • MIRO : miRNA omics

    ...s present implementation MIRO is especially adapted for the analysis of reads generated with the Illumina sequencing platform. MIRO allows to preprocess the Solexa-reads, map them flexibly to several...

    439 days ago

  • bipype

    ...). If WGS are chosen, then bipype finds the SA coordinates of the input reads and generates alignments in the SAM format given single-end reads, aligns reads to reference se...

    381 days ago