Set up WGD environment using conda !
.../site-packages (from wgd==1.2) (1.19.5) Collecting bokeh==1.4.0....4 MB) Collecting fastcluster==1.1.25 Downloading fastcluster-1....inja2-2.11.2-py2.py3-none-any.whl (125 kB) Collecting MarkupSafe>=0...d seaborn-0.11.1-py3-none-any.whl (285 kB) Collecting six>=1.5.2...1266 days ago
Install and set up i-adhore for synteny and wgd analysis ! -- step by step --
...ve argument in the range [0, 15] /home/urbe/Tools/i-adhore-3...tr_lists_030210_201/scaffold_254.lst -- Installing: /home/ur...r_lists_030210_201/scaffold_185.lst -- Installing: /home/urb...etII/vvi_lists_030210_201/chr15.lst -- Installing: /home/urb...1266 days ago
Converting from Windows-style to UNIX-style line endings with dos2unix
Lenovo-ideapad-320-15ISK:~/Downloads/abc/bin$ sudo apt install dos2unix...led, 0 to remove and 0 not upgraded. Need to get 351 kB of archives. After this...ntu bionic/universe amd64 dos2unix amd64 7.3.4-3 [351 kB] Fetched 351 kB in 3s (1...1240 days ago
Install ATOM editor on Elemantory OS / Ubuntu
...ioqueen@bioqueen-Lenovo-ideapad-320-15ISK:~/Downloads/$ sudo apt ins...nf2-common libgconf-2-4 0 upgraded, 5 newly installed, 0 to remove...ervice-backend amd64 3.2.6-4ubuntu1 [58.1 kB] Get:4 http://in.archi....6-4ubuntu1) ... Setting up atom (1.54.0) ... Setting up gconf-ser...1239 days ago
Parse the NCBI taxonomy database with Perl !
...ns->get_lineage_string($nam); #print $lineage; foreach (@lineage) {print $_->scientific_name; print "\n";} my $decision =recheck_class (1974465, "metazoa"); print $decision...1235 days ago
Install htop in elementary/Ubuntu OS !
neelam@neelam-Lenovo-ideapad-320-15ISK:~$ sudo apt-get install htop Reading package lists......r desktop-file-utils (0.23-1ubuntu3.18.04.2+elementary2~ubuntu5.0.1) ... Processing triggers for bamfdaemon (0.5.3+18.04.20180207.2-0ubuntu1)...1215 days ago
1211 days ago
Install NCBI entrez-direct and esearch using conda !
...ironment: done ==> WARNING: A newer version of conda exists. 13.9-pl5262he881be0_2 Proceed ([y]/n)? y Downloading and Extracting Packages entrez-direct-13.9 | 5.2 MB | ###################...1164 days ago
Download genome using NCBI esearch command line !
#Download using command line "NC_005956.1" / "CP003784.1" esearch -db nucleotide -query "NC_005956.1" | efetch -format fasta...1164 days ago
1117 days ago