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• • Poonam Mahapatra@poonam

  

  #Extract all #Reads from #BAM file for a #region Chr10:18000-45500 using #samtools: samtools view input.bam "Chr10:18000-45500" > output.bam

  2872 days ago

• • Shruti Paniwala@shruti

  

  #Extract #tabbed info from #BAM file with samtools: samtools view test.bam|awk '{print $1 "\t" $2 "\t" $3 "\t" $4 "\t" $4+length($10)-1}' > file.xls

  2873 days ago

• • Poonam Mahapatra@poonam

  

  #Extract #Chromosome #Number And Start Position #Reads: samtools view bamfile.bam|awk '{print $3 "\t" $4 "\t" $4+length($10)-1}' > newfile.tab

  2867 days ago

• • Jit@jit.aber

  

  Extract reference nucleotide from BAM file: samtools view your.bam | awk '{print substr( $10, 100, 1)}' #SAM #BAM #Samtools #Tricks #NGS

  2866 days ago

• • Jit@jit.aber

  

  #GATK and #Picard to filter low quality variants https://insidedna.me/tutorials/view/gatk-picard-filter-vcf-variants-snp

  2861 days ago

• • Abhimanyu Singh@abhimanyu

  

  Assembly tutorial https://insidedna.me/tutorials/view/benchmark-seven-popular-genome-assemblers

  2845 days ago

• • Abhimanyu Singh@abhimanyu

  

  Show before(B) and after(A) the matching region $ grep -B 3 -A 2 foo README.txt #Linux #Tricks #View #Grep

  2560 days ago

• • BioStar@biostar

  

  Bioinformatics online tutorial https://bioinformaticsonline.com/pages/view/1537/virtual-bioinformatics-online-tutorial #Bioinformatics #Tutorial

  1978 days ago

• • Jit@jit.aber

  

  samtools view -f 256 Input.bam | awk '$6 ~/S/ && $7 == "=" {print $0}' > Secondary_clipped.sam

  2294 days ago

• • Neelam Jha@neelam

  

  Bioinformatics job at Naotia University https://drive.google.com/file/d/0B0Y1Fpxmzyd3OHQ3aUNYa3hZY2c/view?pref=2&pli=1 #Job #Neotia #Professor

  2191 days ago

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