Sequence Ids conversion files !
ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/ Name Size Date Modified ARCHIVE/ 02/01/2020, 05:30:00 ASN_BINARY/ 03/07/2020, 07:49:00 GENE_INFO/ 03/07/2020, 07:48:00...1541 days ago
Bash script to get exon fragments from genome files !
#Exons are already defined in the GTF file, so we simply need to print lines that are marked exonic. gunzip -c genome_file.gtf.gz | awk 'BEGIN{OFS="\t";} $3=="exon" {print $1,$4-1,$5}' | bedtools sort | bedtools merge -i - | gzip > my_exon.bed.gz1504 days ago
Bash script to get intergenic region from genome files !
#For the intergenic region, we will require the size of the chromosomes. wget http://xxx.chrom.sizes cat xxx.chrom.sizes | sed 's/^chr//' | sed 's/Cp/Pt/' > tmp m...1504 days ago
Bash script to handle Multifasta files
...sta > output.fasta #Match FASTA headers in two different multi-FASTA files $ awk 'NR=FNR{a[$0];next}$0 in a{print $0}' input1.fasta input2.fasta #Merge all FASTA files in a directory into a single...1496 days ago
Create random 10000 SNPs in genome !
...> 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 correspo...1349 days ago
Create random 1000 INDEL in genome !
...= 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 correspo...1349 days ago
Create random 1000 CNVs in genome !
...nv_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 correspo...1349 days ago
Create random 5 inversions in genome !
...ize = 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 correspo...1349 days ago
Create random 2 translocations in genome !
...ng 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 correspo...1349 days ago
Install htop in elementary/Ubuntu OS !
...amd64 htop amd64 2.1.0-3 [80.0 kB] Fetched 80.0 kB in 0s (239 kB/s) Selecting previously unselected package htop. (Reading database ... 176684 files and directories currently ins...1290 days ago