Results for "short reads mapping"
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Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-ba...3006 days ago
- LAST can: Handle big sequence data, e.g: Compare two vertebrate genomes Align billions of DNA reads t...
2992 days ago
RNA-Seq De novo Assembly Using Trinity
Trinity, developed at the Broad Institute and the Hebrew University of Je...y to process large volumes of RNA-seq reads. Trinity partitions the seque...s in parallel, tracing the paths that reads and pairs of reads take withi...ike so: Trinity --seqType fq --left reads_1...2979 days ago
PAired-eND Assembler for DNA sequences
PANDASEQ is a program to align Illumina reads, optionally with PCR primers embedded in the sequence, and reconstruct an overlapping sequence. More at https://github.com/neufeld/pandaseq2965 days ago
- MIRA is a multi-pass DNA sequence data asse.../RNASeq projects. MIRA assembles/maps reads gained by electrophore...ly run (a true hybrid assembly) or by mapping one type of data to an assemb...cing type (a semi-hybrid assembly (or mapping)) or by mapping a data agains...
2965 days ago
RACA: Reference-Assisted Chromosome Assembly
Rreference-Assisted Chromosome Assembly (RACA), an algorithm to reliably order and orient sequence scaffolds gener...nger chromosomal fragments using comparative genome information and paired-end reads....2965 days ago
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...er with a highly optimized implementation, it can merge millions of paired end reads w...2964 days ago
REAPR: a universal tool for genome assembly evaluation
...enome assembly using mapped paired end reads, without the use of a referen...an assembly in FASTA format and paired reads mapped to the assembly in a BAM file. Mapping information such as the fra...(at least 1000bp). Additionally, if a short insert Illumina library is also...2964 days ago
Trimmomatic: A flexible read trimming tool for Illumina NGS data
Paired End: java -jar trimmomatic-0.35.jar PE -phred33 input_forward.fq.gz input_reverse.fq.gz output_forward_pai...ng when the average quality per base drops below 15 (SLIDINGWINDOW:4:15) Drop reads b...2956 days ago
- DISCOVAR is a new variant caller and DISCOVAR de novo a new genome assembler, both designed for state-of-the-art d...optimize quality while keeping costs low. Currently it takes as input Illumina reads o...
2952 days ago
