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Results for "Reads"

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• • Jit@jit.aber

  

  Find a pattern in first 7 characters of reads. bioawk -c fastx 'substr($seq,0,7) == $TAG { print }' reads.fq.gz #Reads #NGS #Extract #Pattern

  2492 days ago

• • Jit@jit.aber

  

  #Sickle ( https://github.com/najoshi/sickle ) to #trim #reads using a 20-Phred quality threshold

  2482 days ago

• • Jit@jit.aber

  

  #Filter out #reads with #size to discard reads containing many Ns. BBNorm ( https://sourceforge.net/projects/bbmap/ )

  2482 days ago

• • Jit@jit.aber

  

  Get the reads in fastq file: awk '{s++}END{print s/4}' file.fastq #reads #count #ngs #fastq

  2361 days ago

• • Jit@jit.aber

  

  #Error filtering, pair assembly and error #correction for next-generation sequencing #reads https://academic.oup.com/bioinformatics/article/31/21/3476/194979

  2334 days ago

• • 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

  2333 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

  2306 days ago

• • Jit@jit.aber

  

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

  2301 days ago

• • Jit@jit.aber

  

  Harness PacBio reads with assemblers https://github.com/PacificBiosciences/Bioinformatics-Training/wiki/Large-Genome-Assembly-with-PacBio-Long-Reads #Reads #Assemblers #PacBio

  2262 days ago

• • Jit@jit.aber

  

  reformat.sh in=reads.fq out=highQuality.fq maq=16 (that will throw away all reads with average quality below 16) #Filter #BBMap #Quality

  2149 days ago

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