Results for "Statistics and Probability"
Bio-Scripts
# To follow these instructions, we'll assume your system admins have a...t to install different Perls, and cd into it: # Note that it d...l into a subfolder named src, and untar: curl --create-dirs -L...Perl::OSType Module::Metadata Statistics::Lite Tie::Autotie Tie...5LIB to find these libraries, and set $PA...2141 days ago
Calculate some statistics for a DNA alignment with Perl
use Bio::AlignIO; use Bio::Align::DNAStatistics; my $stats = Bio::Align::DNAStatistics->new(); my $alignin = Bio::Align...print $jcmatrix->print_matrix; ## and for measurements of synonymou...print "comparing ".$results->[0]{'Seq1'}." and ".$resu...2646 days ago
Plot the clock using Lastz -gerenal outfile
use strict; use warnings; use Statistics::R ; use List::Util qw(sum); #Usage perl clockPlot.pl Palindrome.palfc 1500 my $R = Statistics:...2296 days ago
Perl script to find coding regions in DNA sequences
#!/usr/bin/perl -w use strict; # if the...ar expression # A group of letters and a decimal number ($codon...t triplet, the ratio between # the probability computed from the tab...codon frequencies divided # by the random probability (uniform), that is, 1/64. Aft...2152 days ago
Perl script to run SATSUMA in loop !
#!/usr/bin/perl -w use strict; use File::Temp qw(tempfile); # Usage perl 1by1.pl for SATSUMA analysis #...the ids if ($ARGV[1] eq "ids") { my $idFile="palindrome_ids.txt"; open my $handle, '2137 days ago
- jitendra@jitendra-UNLOCK-INSTALL[SNP] wget https://github.com/broadins...ES/FILE gatk forwards commands to GATK and adds some sugar for submitting spark...Accumulate flag statistics given a BAM file...AM/CRAM by read group, sample and library name SplitSamByL...
2072 days ago
Installing docker for Bioinformatics on Ubuntu !
jit@jit-HP-Pro-3335-MT:~/Downloads$ sudo apt-get remove docker docker-...that you will have to log out and back in for this to take effe...overrides DOCKER_HOST env var and default context set with "doc...f container(s) resource usage statistics stop Stop on...exit codes Run 'docker COMMAND --help'...1510 days ago
Commands to install Statistics::R module in Ubuntu !
$ sudo apt-get install libstatistics-r-perl Reading package lists......ages will be installed: libstatistics-r-perl r-base r-base-html 0...newly installed, 0 to remove and 0 not upgraded. Need to get 87.4 kB...ing database ... 209534 files and directories currently install...1508 days ago
- jit@jit-HP-Pro-3335-MT:~/Downloads/testDock$ sudo docker system df TYPE...bioperl && apt-get install -y libstatistics-distributions-perl && apt...readsheet::Read && cpanm install Statistics::ChiSquare ---> Usin...reative Commons Licence Bug-reports and request...
1506 days ago
- (JitMetaENV) ➜ ~ conda install -c bioconda quast Collecting package metadata (current_repodata.json): done Solving environment: done ==> WARNING: A newer version...
1212 days ago
