SOAPec¶

Description¶

This program corrects the sequencing errors base on kmer frequency spectrum(KFS). It assume that most low- frequency Kmers were generated by sequencing errors, so the key of error correction is that the distinguis h rate of the low-frequency and high-frequency Kmers, the larger Kmer size, the better of this effect but need more computing resouce. In order to get an extreme high accuracy result, we balanced the trimmed leng th and delete ratio with the accuracy level. The practical Kmer size should be chosen based on the genome characteristic.

Environment Modules¶

Run module spider soapec to find out what environment modules are available for this application.

Environment Variables¶

HPC_SOAPEC_DIR - installation directory
HPC_SOAPEC_BIN - executable directory
HPC_SOAPEC_DOC - documentation directory

Categories¶

biology, phylogenetics