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 of memory....2944 days ago
REAPR: a universal tool for genome assembly evaluation
...to locate mis-assemblies. REAPR works best using mapped read pairs from a large insert library (at least 1000bp). Additionally, if a short insert Illumina library is also available, RE...2944 days ago
2935 days ago
Trimmomatic: A flexible read trimming tool for Illumina NGS data
...paired.fq.gz output_reverse_paired.fq.gz output_reverse_unpaired.fq.gz ILLUMINACLIP:TruSeq3-PE.fa:2:30:10 LEA...W:4:15 MINLEN:36 This will perform the following: Remove adapters (ILLUMINACLIP:TruSeq3-PE.fa:2:30:10) R...2935 days ago
2932 days ago
2924 days ago
MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping
...to a reference genome. Uniquely among current mapping tools, MOSAIK can align reads generated by all the major sequencing technologies, including Illumina, Applied Biosystems SOLiD, Ro...2900 days ago
2900 days ago
Linux command line exercises for NGS data processing
...command line tools such as grep, sed, perl etc. Furthermore, having a command on awk will make it easier to understand advanced tutorials such as Illumina Amplicons Processing Workflow...2867 days ago
2810 days ago