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Sample.zip 2011-06-19 24.0 MB 22 weekly downloads
Qamar 1.0.0.zip 2011-06-19 343.5 kB 11 weekly downloads
README 2011-06-19 1.3 kB 11 weekly downloads
Qamar 1.0.0 Qamar is a sophisticated tool for correcting sequencing errors; it is based on de Bruijn sequences and solves erroneous reads as the 1-mismatch string problem. The first release of this tool can correct sequences from Illumina/Solexa and Sanger high-throughput sequencing technologies. It is highly accurate, fast and works well for all kinds of reads, whether short or long or even mixed and whatever the genome sizes and coverage levels are. INSTALLATION ------------ Qt libraries must be installed. It can be downloaded from (http://qt.nokia.com/downloads) To compile Qamar, simply run: make RUNNING QAMAR ------------- ./Qamar input ouput Type [kmer] [minFreq] [Iter] such that: Type = fasta or fastq.. the type of the input file kmer = 8,9,10.......... (21 by default) the kmer length must be < 33 minFreq = 1,2,3........... ( 2 by default) the frequency of kmers that should be corrected Iter = 1,2,3........... ( 1 by default) Number of iterations ACKNOWLEDGMENTS --------------- Mohammed Sahli, Tetsuo Shibuya This work was partially supported by the Grant-in-Aid from the Ministry of Education, Culture, Sports, Science and Technology of Japan. CONTACT ------- Mohammed Sahli: mohammed@hgc.jp Tetsuo Shibuya: tshibuya@hgc.jp
Source: README, updated 2011-06-19