Due Sept 4, 2018
Compile your answers in a .txt document
Turn your answers by uploading your .txt document to CANVAS
HINT: If the question asks for a command, write the full command as you would write it on the command line.
HINT: You don't need to include the question in your write-up, just the answer.
celegansand navigate into it.
$ rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/ce10/chromosomes/ . OR $ wget --timestamping 'ftp://hgdownload.cse.ucsc.edu/goldenPath/ce10/chromosomes/*'
If you did Exercise 1 correctly, you should have a directory containing individual fasta files for each C. elegans chromosome. Now, let's merge these individual chromosome files into one large genome fasta file.
celegans_genome.fa? execute the command
celegans_genome.facontains seven concatenated chromosomes. What (piped) set of commands would you execute to check that the file is composed of seven chromosomes?
celegans_genome.fa. Assume that the file
blerg.jpgdoesn't exist. What will be saved in the file
output.txtwhen you execute the following commands?:
A $ wc celegans_genome.fa blerg.jpg > output.txt B $ wc celegans_genome.fa blerg.jpg 2> output.txt C $ wc celegans_genome.fa blerg.jpg &> output.txt
$ ls -1 README.txt celegans_genome.fa chrI.fa chrII.fa chrIII.fa chrIV.fa chrM.fa chrV.fa chrX.fa md5sum.txt
#This one is for MAC people:
$ md5 *.fa | tail -n 7 | cut -d ' ' -f 4
#This one is for WINDOWS people:
$ md5sum-lite *.fa | tail -n 7 | cut -d ' ' -f 1
celegans_genome.fathat contains the annotation line for
chrII. However, she erroneously comes up with this output…
wcto save a file containing word count information for one file.
cutto parse the word count information (in your saved file) into lines, words, and characters. It doesn't work.