Ancient whole genome duplication (WGD) detection tools !
...//www.life.illinois.edu/ming/downloads/Spontaneum_genome/Sspon.v20190103.gff3.gzgunzip *.gz First conda...bute ID \ -ks wgd_ksd/Sspon.v20190103.cds.fasta.ks.tsv \ Sspon.v20190103.gff3 Sspon_cds.out/Sspon.v20190103...1161 days ago
Barrnap: Bacterial ribosomal RNA predictor
...(5S,23S,16S), archaea (5S,5.8S,23S,16S), mitochondria (12S,16S) and eukaryotes (5S,5.8S,28S,18S). It takes FASTA DNA sequence as input, and write GFF3 as output. It uses the new NH...2556 days ago
Prokka: tool for the rapid annotation of prokaryotic genomes
...A typical 4 Mbp genome can be fully annotated in less than 10 minutes on a quad-core computer, and scales well to 32 core SMP systems. It produces GFF3, GBK and SQN files that are r...2623 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...ants; Four tools: VAT (Variant annotation tool), VST (Variant Selection Tool), VAAST, pVAAST (for pedigree data); updated April 2015 Input: FASTA, GFF3, GVF Output: CDR (condenser...2915 days ago
Release Notes for Genome Workbench 2.10.5
...rated with Genome Workbench (Tutorial, Video) New export function for BAM/cSRA coverage graphs (Tutorial) New export function for alignments GFF3 format ((Tutorial)) Tree Vie...2921 days ago
Perl script to convert GFF 2 FASTA !
...x the genome my $file_fasta = $ARGV[0]; my $db = Bio::DB::Fasta->new($file_fasta); print ("Genome fasta parsed\n"); ### Second, parse the GFF3 my %CDS; my %CDNA; my $mRN...2145 days ago
1209 days ago