PEAR: a fast and accurate Illumina Paired-End reAd mergeR
PEAR is an ultrafast, memory-efficient and highly accurate pair-end read merger. It is fully parallelized and can run with as low as just a few kilobytes...red-end read overlaps and without requiring the target fragment size as input. In additi...2995 days ago
REAPR: a universal tool for genome assembly evaluation
REAPR is a tool that evaluates the accuracy of a genome assembly using mapped pai...in a BAM file. Mapping information such as the fragment coverage and insert size...t using mapped read pairs from a large insert library (at least 1000bp). Addition...2995 days ago
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Trimmomatic: A flexible read trimming tool for Illumina NGS data
...tput_reverse_unpaired.fq.gz ILLUMINACLIP:TruSeq3-PE.fa:2:30:10 LEADING:3 TRAILING:3 SLIDINGWINDOW:4:15 MIN...ove leading low quality or N bases (below quality 3) (LEADING:3) Remove trailing low quality or N bases (...2986 days ago
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HOMER: Software for motif discovery and next-gen sequencing analysis
...wn data or from public sources) Checking sequence quality, trimming, general sequence manipulation Mappi...gnment files Visualizing data in a genome browser RNA-Seq De novo transcript discovery and differen...2975 days ago
mrFAST: Micro Read Fast Alignment Search Tool
...th a special emphasis on the discovery of structural variation and segmental dupl...4 bp. This manual, describes how to choose the parameters and tune mrFAST with re...return one "best" map location if the relevant parameter is invoked. More at&nbs...2975 days ago