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• • Neelam Jha@neelam

  

  Delete space from FASTA header: perl -pe 's/>\S+\K.+//' < file.fasta > new_file.fasta #PerlOneLiner #Trick #Perl #Space #Fasta

  2994 days ago

• • Surabhi Chaudhary@surabhi

  

  #BAM file to fasta #conversion with #Samtool: samtools view filename.bam | \ awk '{OFS="\t"; print ">"$1"\n"$10}' - > filename.fasta

  2980 days ago

• • Surabhi Chaudhary@surabhi

  

  #BAM file to #fastaq #conversion with #Samtool: samtools view filename.bam | awk '{OFS="\t"; print "@"$1"\n"$10"\n+\n"$11}' >| filename.fastq

  2980 days ago

• • 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

  2887 days ago

• • Archana Malhotra@archana

  

  Bioinformatics #scientist openings at #THSTI, India http://thsti.res.in/down_file.php?file=146770901039THS-RN-21-2016.pdf

  2873 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

  2888 days ago

• • Jit@jit.aber

  

  Check if BAM file is sorted or not use: for F in `find . -name "*.bam"`; do echo $F; samtools index ${F} ; done #Sort #BAM #Trick

  2884 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

  2881 days ago

• • Jit@jit.aber

  

  Sync your broken transfer in Linux rsync -e ssh file host:/directory/. #rsync #scp #Linux

  2854 days ago

• • Jit@jit.aber

  

  Bioinformatics #walkin at #ICFRE http://www.icfre.org/UserFiles/File/advertisement_job/IFP-walk-in_22Jul16.pdf

  2852 days ago

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