Results for "fastq"



    SCALCE (/ske…™lz/, a.k.a. boosting Sequence Compression Algorithms using Locally ConsistentEncoding) is a tool for compressing FASTQ files. It is designed specifically for the Illumina-generated FASTQ files, but supports any valid FASTQ with consistent read lengths.  ...

    Tags: Bioinformatics, FASTQ, Compression, Decompression, NGS

    643 days ago

  • ALE: a Generic Assembly Likelihood Evaluation Framework for Assessing the Accuracy of Genome and Metagenome Assemblies

    Assembly Likelihood Evaluation (ALE) framework that overcomes these limitations, systematically evaluating the accuracy of an assembly in a reference-independent manner using rigorous statistical methods. This framework is comprehensive, and integrates read quality, mate pair orientation and inse...

    Tags: Bioinformatics, FASTQ, NGS, ALE, Framework, Stats, Reads, Evaluation, Quality, Assembly

    632 days ago

  • 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

    632 days ago

  • CANU: Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing.

    Canu is a fork of the Celera Assembler designed for high-noise single-molecule sequencing (such as the PacBio RSII or Oxford Nanopore MinION). The software is currently alpha level, feel free to use and report issues encountered. Canu is a hierachical assembly pipeline which runs in fo...

    Tags: Bioinformatics, FASTQ, NGS, Assembly, Genome, CANU, Assembler, Tool, Software

    615 days ago

  • segemehl

    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

    618 days ago

  • How to intrepet the FASTQ files?

    How to intrepet the FASTQ files? What does Q score mean? Does + have any meanings? 

    Tags: Bioinformatics, NGS, FASTQ, Qscore

    506 days ago

  • fqtools

    fqtools is a software suite for fast processing of FASTQ files. Various file manipulations are supported. See below for a full list of the subcommands available and a brief description of their purpose. Most of the individual subcommands will take either a single file or a pair of ...

    Tags: Bioinformatics, Analysis, NGS, fqtools, FASTQ

    405 days ago

  • fastq to fasta convertor $ sed -n '1~4s/^@/>/p;2~4p' test.fastq > test.fasta #Convert #Fasta #Fastq #fa #fq

    Tags: Convert, Fasta, Fastq, fa, fq

    251 days ago

  • cutadapt

    Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads. Cleaning your data in this way is often required: Reads from small-RNA sequencing contain the 3’ sequencing adapter because the read is longe...

    Tags: Bioinformatics, Cutadapt, NGS, Reads, Fastq, Sequencing

    615 days ago

  • WGS Celera Assembler version 8.3rc2

    These are release notes for Celera Assembler version 8.3rc2, which was released on May 24, 2015.This distribution package provides a stable, tested, documented version of the software.  The distribution is usable on most Unix-like platforms, and some platforms have pre-compiled binary distri...

    Tags: Bioinformatics, wgs-assembler, WGS, PBcR, Pacbio, Correct, Packages, Tools, Simulation, Fastq

    283 days ago