Installing docker for Bioinformatics on Ubuntu !
....com/linux/ubuntu/gpg" | apt-key add -qq - >/dev/null Warning: apt-key output should not be parsed (stdout...Manage volumes Commands: attach Attach local standard input, output, and error streams to a runni...1507 days ago
1396 days ago
Bash script to handle Multifasta files
...BEGIN{FS=" "}{if(!/>/){print toupper($0)}else{print $1}}' input.fasta > output.fasta #Rearrange FASTA seq...d\t%s\n",length($2),$0;)}' |\ >sort -k1,1n | cut -f 2- |tr "\t" "\n" > output.fasta #Add ‘>’ at the begi...1351 days ago
picard tools command to get some insert statistics
...e load picard/2.0.1 java -Xmx16g -XX:PermSize=8g -jar $PICARD_HOME/picard.jar CollectInsertSizeMetrics MINIMUM_PCT=0 HISTOGRAM_FILE=.pdf INPUT= OUTPUT=.sorted.collectInseSize HISTO...1330 days ago
Create random 10000 SNPs in genome !
...meters: > snp_count = 10000 > titv_ratio = 0.5 [Sun Jan 10 16:05:57 2021] Simulation completed! :) [Sun Jan 10 16:05:57 2021] Generating output files .. Generating the co...1204 days ago
Create random 1000 INDEL in genome !
..._alpha = 2 > indel_size_powerlaw_constant = 0.5 [Sun Jan 10 16:14:00 2021] Simulation completed! :) [Sun Jan 10 16:14:00 2021] Generating output files .. Generating the co...1204 days ago
Create random 1000 CNVs in genome !
...10 > cnv_min_size = 100 > cnv_max_size = 10000 [Sun Jan 10 16:24:20 2021] Simulation completed! :) [Sun Jan 10 16:24:20 2021] Generating output files .. Generating the co...1204 days ago
Create random 5 inversions in genome !
...n_min_size = 1000 > inversion_max_size = 100000 [Sun Jan 10 16:30:40 2021] Simulation completed! :) [Sun Jan 10 16:30:40 2021] Generating output files .. Generating the co...1204 days ago
Create random 2 translocations in genome !
...following parameters: > translocation_count = 2 [Sun Jan 10 17:12:58 2021] Simulation completed! :) [Sun Jan 10 17:12:58 2021] Generating output files .. Generating the co...1204 days ago
Install and set up i-adhore for synteny and wgd analysis ! -- step by step --
...e/x86_64-linux-gnu/bits/stdio2.h:34:43: note: ‘__builtin___sprintf_chk’ output between 8 and 26 bytes into a...e/x86_64-linux-gnu/bits/stdio2.h:34:43: note: ‘__builtin___sprintf_chk’ output between 8 and 26 bytes into a...1197 days ago