Script Description  Extracts the assembly stats of a genome fasta file Run the genscan gene prediction program in batch mode. Runs genscan as well as converts output to gff forma Given a fasta and a coordinates file extracts the region corresponding to the coordinates Converts a fastq to fasta file Filters a multifasta format file based on a length cutoff Provides the lengths of chromosome as well as the total genome size Provides the lengths of the reads in a fastq file Converts gff format to the gtf file Retrieves the sequences (EST seq., unigenes, gene seq, books etc) from NCBI repository
seqtk Post processing and format conversions of fasta/Fastq files Split a multi fasta format file into individual fasta sequence files Format conversions and filtering of the vcf files Rename headers of a fastq file Extracts the regions of a fasta file with flanking regions from an assembly fasta file
ISMU_v1.0.tar.gz ISMU pipeline –
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