$what = "Exercise - Module M18 - Core- and Pan genomes. Metagenomics."; standard_head($what); # Create CBS menu. Format is: # Keyword, Path, Name_of_this_page # Keyword is the keyword for the menu color/area. # Name_of_this_page is what this page is called in the hieraki # Path format is a number of comma separated entries in parenthesis # showing the path to this page; (services/,'CBS Prediction Servers') standard_menu("CBSCO","(courses.html,'CBS Courses'),(courses/thaiworkshop08/index.php,'Comparative Microbial Genomics Workshop - 2008 Thailand'),(courses/mvnworkshop08/programme.php,'Course Programme')",$what); ?>
umask 022 cp -rL ~www/pub/CBS/courses/thaiworkshop08/m18 ~/ cd ~/m18
less ./Burkholderia_blastatlas.conf
perl getseq.pl BX571965 > BX571965.fsa perl getprot.pl BX571965 > BX571965.proteins.fsa
getgene BX571965 | saco_convert -I genbank -O annotation > BX571965.ann less BX571965.ann
perl genomeatlas.pl -ref BX571965.fsa -t "B. pseudomallei K96243, chr. I" \ -dnap "Intrinsic Curvature,Stacking Energy,Position Preference,Percent AT" \ -proteins BX571965.proteins.fsa -ann BX571965.ann -blastcfg Burkholderia_blastatlas.conf > Burkholderia_blastatlas.pdf Open the PDF file: m18/Burkholderia_blastatlas.pdf
perl getseq.pl CP000111 > CP000111.fsa perl getprot.pl CP000111 > CP000111.proteins.fsa
getgene CP000111 | saco_convert -I genbank -O annotation > CP000111.ann
perl genomeatlas.pl -ref CP000111.fsa -t "P. marinus str. MIT 9312" \ -dnap "Intrinsic Curvature,Stacking Energy,Position Preference,Percent AT" \ -proteins CP000111.proteins.fsa -ann CP000111.ann -blastcfg Pmarinus_blastatlas.conf > Pmarinus_blastatlas.pdf Open the PDF file: m18/Pmarinus_blastatlas.pdf
less burkholderia.listA perl coregenome-1.2 < burkholderia.listA > data.dat less data.dat R --vanilla < coreplot.R mv plot.ps coreplotA.ps gmake coreplotA.pdf Open the PDF file: m18/coreplotA.pdf
less burkholderia.listB perl coregenome-1.2 < burkholderia.listB > data.dat less data.dat R --vanilla < coreplot.R mv plot.ps coreplotB.ps gmake coreplotB.pdf Open the PDF file: m18/coreplotB.pdfQUESTION What is the difference between the two input lists - and what is the difference between the out output plots?