Results for "Genomic"

Bio-Scripts

  • Plot the density of genes in R

    #column1 = chromosome name and column2 = start position of the gene # check if ggplot2 is installed, if so, load it, # if not, install and load it if("ggplot2" %i...

    2247 days ago

  • Downloading GATK !

    ...- Intervals Manipulation: Tools that process genomic intervals in various formats...----------------------------------------------------------------- Metagenomics:...

    2038 days ago

  • Pack a perl program with their dependencies on Ubuntu !

    ...e medical records for easy access anytime, anywhere. To know more visit here: https://www.lazoi.com/Home Comparative Genomics !!This group is dedicated to Comparative genomics ... Dramatic results have em...

    1474 days ago

  • Create random 10000 SNPs in genome !

    ...] Generating output files .. Generating the correspondance map for genomic variants introduced during si...muSNP.refseq2simseq.map.txt Generating reference-based vcf file for genomic variants introduced during si...

    1174 days ago

  • Create random 1000 INDEL in genome !

    ...] Generating output files .. Generating the correspondance map for genomic variants introduced during si...INDEL.refseq2simseq.map.txt Generating reference-based vcf file for genomic variants introduced during si...

    1174 days ago

  • Create random 1000 CNVs in genome !

    ...] Generating output files .. Generating the correspondance map for genomic variants introduced during si...muCNV.refseq2simseq.map.txt Generating reference-based vcf file for genomic variants introduced during si...

    1174 days ago

  • Create random 5 inversions in genome !

    ...] Generating output files .. Generating the correspondance map for genomic variants introduced during si...muINV.refseq2simseq.map.txt Generating reference-based vcf file for genomic variants introduced during si...

    1174 days ago

  • Create random 2 translocations in genome !

    ...] Generating output files .. Generating the correspondance map for genomic variants introduced during si...TRANS.refseq2simseq.map.txt Generating reference-based vcf file for genomic variants introduced during si...

    1174 days ago

  • Oneliner to convert lower-case to sequence masked with Ns

    perl -pe '/^[^>]/ and $_=~ s/[a-z]/N/g' genomic.fna > genomic.N-masked.fna awk '{if(/^[^>]/)gsub(/[a-z]/,"N");print $0}' genomic.fna > genomic.N-masked.fna

    913 days ago

  • Extract the sequences with IDs !

    #sed -i 's/\_/ /g' Delta_seqID_from_lineage_report.txt seqtk subseq genomic.fna Delta_seqID_from_lineage_report.txt > Delta.fasta #Split the fasta in 11 equal sequences subsets pyfasta split -n 11 Delta.fasta

    814 days ago