RNA-Seq De novo Assembly Using Trinity
...rinity here. Build Trinity by typing 'make' in the base installation directory. Assemble RNA-Seq data like so: Trinity --seqType fq --left reads_1.fq --right reads_2.fq --CPU 6...2962 days ago
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RACA: Reference-Assisted Chromosome Assembly
...nd assemblers into longer chromosomal fragments using comparative genome information and paired-end reads. http://www.ncbi.nlm.nih.gov/pubmed/23307812 http://bioen-compbio.bioen....2948 days ago
QUAST: quality assessment tool for genome assemblies
...le assemblies, thus is suitable for comparison. More at http://bioinf.spbau.ru/quast http://bioinformatics.oxfordjournals.org/content/early/2013/03/09/bioinformatics.btt086....2947 days ago
REAPR: a universal tool for genome assembly evaluation
...ge and insert size distribution is analysed to locate mis-assemblies. REAPR works best using mapped read pairs from a large insert library (at least 1000bp). Additionally, if a sho...2947 days ago
Trimmomatic: A flexible read trimming tool for Illumina NGS data
...z output_reverse_unpaired.fq.gz ILLUMINACLIP:TruSeq3-PE.fa:2:30:10 LEADING:3 TRAILING:3 SLIDINGWINDOW:4:15 MINLEN:36 This will perform...g window, cutting when the average quality per base drops below 15 (SLIDINGWINDOW:4:15) Drop r...2939 days ago
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