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Results for "BED files"

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• • Neelam Jha@neelam

  

  Store all files in a array using perl: my @filesbwa = <$base_name/reads/$base_name.$library.bwa.*fa> #Store #Keep #Array #Perl

  2337 days ago

• • Neelam Jha@neelam

  

  Bioinformatics opportunity for AU, India students http://allduniv.ac.in/ckfinder/userfiles/files/Final%20Advt%20171117.pdf #AU #Allahabad #Opportunity

  2322 days ago

• • Poonam Mahapatra@poonam

  

  Convert interleaved to separate files with BBmap. $ reformat.sh in=reads.fq out1=reads_r1.fq out2=reads_r2.fq #interleave #fastq #seperate #reformat #bbmap

  2309 days ago

• • Jit@jit.aber

  

  interleave fastq files https://gist.github.com/nathanhaigh/4544979 #interleave #fastq #pair #ngs #reads

  2305 days ago

• • Jit@jit.aber

  

  get the fasta genes using gff3 and genome.fa sequence: ~/Tools/bedtools2/bin/bedtools getfasta -fi vaga.fa -bed Adineta_vaga.v2.gff3 -fo Adineta_vaga_genes.fa

  2296 days ago

• • Rahul Nayak@rahul

  

  #Extract all the files from a #directory and #sub-dir with #pattern. $ find TrimmedDir -type f | grep "L_" | xargs -i cp {} .

  2225 days ago

• • Jit@jit.aber

  

  Glob multiple files in Linux with Perl. my @soundfiles = grep {/\.(wav|mid|mp3|rm|ogg)$/i} glob("*"); #Perl #Linux #Glob

  2223 days ago

• • Rahul Nayak@rahul

  

  Get the sequences using coordinates in bed file. $ bedtools getfasta -fi input_file.fa -bed regions_file.bed #Bed #Extract #Sequence #bedtools

  2239 days ago

• • Neelam Jha@neelam

  

  BAM2BED conversion bamToBed -i overall_exp_genome_rep1.bam > alignment.bed #Bed #bam #bamToBed #convert

  2021 days ago

• • Abhimanyu Singh@abhimanyu

  

  #Intersect your bed data with coverage $ bedtools genomecov -ibam aln.bam -bga | awk '$4==0' | bedtools intersect -a cds.bed -b - -f 1.0

  1993 days ago

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