Results for "structural and sequence variation"
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...genomic revolution to inspect and understand variants, expression patterns, evolu...ignments along both reference and query sequences, along with any associated v...the translocation of a 4.4 kb sequence deleted from chr19 and inserted into chr16 (Figure 1b). Th...2764 days ago
- ART is a set of simulation tools to generate synthetic next-generation sequenc...ng platforms: Illumina's Solexa, Roche's 454 and Applied Biosystems' SOLiD. AR...luding read alignment, de novo assembly, SNP and structure variation discovery. ART was used as a...
2751 days ago
- ...e of Python scripts that wrap and connect bioinformatics tools in order to extract target sequences from high-throughput DN...ample for each target region, and a separate file with the translated protein sequence. HybPiper also includes post...irectory per run of HybPiper, and some...
2750 days ago
Maq: Mapping and Assembly with Quality
Maq stands for Mapping and Assembly with Quality It.... All you need is a reference sequence file in the FASTA format....nome. Download maq, maq-data and maqview at the download page. Copy maq, maq.pl and maq_eval.pl to the $PATH or to the...te diploid reference and read sequences...2732 days ago
- Background. Next-generation sequencing technologies are now pro...is information is disregarded and the reference genome is used....oftware to experimental reads and so-called pseudoreads and uses the...generate a modified reference sequence. In this way, it can very qui...
2729 days ago
- ...manipulation (mostly genomic sequences, alignments, variation etc.), as well as specialize...lyses. It also features three sequence alignment packages: Sats...for less diverged sequences; and SLAP, a context-sensitive local aligner for diverged sequences with large gaps. Access ...
2726 days ago
- Bipype is a very useful program, which prepare a lot of types o...amplicons, WGS (whole genome sequences) and metatranscriptomic data. If a...en bipype does reconstruction and pairs merging. After that biodiver...oordinates of the input reads and generates alignments in the SAM fo...
2722 days ago
- SGA is a de novo genome assembler based on the concept of string graphs. The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence...
2716 days ago
- Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput seq...finding the adapter or primer sequences in an error-tolerant way. It can also modify and filter reads in various ways. Adap...ata, without removing adapter sequences...
2709 days ago
CISA: Contig Integrator for Sequence Assembly
A plethora of algorithmic assemblers have been proposed for the de novo assembly of genom...contigs, resulting in assemblies of superior contiguity and accu...assemblies generated by the state-of-the-art assemblers and the h...2709 days ago
