Results for "CDS"
Bio-Scripts
Parse a genbank file using regular expressions
...print "Organism: $2\n"; } elsif(/(gene)(\s*)(\d*)(\.\.)(\d*)/) { print "Gene length: $5\n"; } elsif (/(CDS\s*)(\d*)(\.\.)(\d*)/) { # ex: CDS 357..1541...2930 days ago
Perl script to convert GFF 2 FASTA !
...= 1; # Flush output my $outfile_cds = Bio::SeqIO->new( -format => 'fasta', -file => ">$ARGV[2].cds.fasta" ); my $outfile_pep =...# Output type description ###### # cds - translated sequence (starti...### Second, parse the GFF3 my %CDS; my %CDNA; my $mRNA_name;...2152 days ago
get GC across the entire CDS !
#look at GC across the entire CDS. gffread -x - -g | \ seqtk comp - | \ awk -v OFS="\t" '{ print $1, "0", $2, ($4 + $5) / $2 }'1406 days ago
- ...: done #Run as follows (jitENV) jitendra@Bathymodiolus:~$ gffread -w cds.fa -g ed.clean.fasta gene_str...s.19157.gff3 #There are also another good option python gff2fa.py -t CDS ../../GCF_0355.2_L0_genomic.g...
1216 days ago
Set up WGD environment using conda !
...bution construction. mcl All-vs.-all blastp + MCL clustering. mix Mixture modeling of Ks distributions. pre Check and optionally rename CDS files. syn Co-linearity a...1216 days ago
