BOL

Human genome reads http://www.bcgsc.ca/downloads/btl/ntedit/paper/human/ #human #genome #reads #data

Long read assembly workshop https://www.melbournebioinformatics.org.au/tutorials/tutorials/pacbio/ #Long #Reads #Assembly #PacBio #Learn #Tutorial #Workshop

I recommend two technologies: long reads to get the genome right, short reads to get the bases right. #Genome #Assembly #Reads #LonfReads

Long reads assembly tutorial https://www.melbournebioinformatics.org.au/tutorials/tutorials/pacbio/ #Long #Reads #PacBio #assembly #Genome

Long reads: their purpose and place https://academic.oup.com/hmg/article/27/R2/R234/4996216 #Long #reads #informations

Understanding Paired End and Mate pair reads http://www.biorigami.com/wp-content/uploads/2012/02/PAIREDEND-MATEPAIR.pdf #Reads #Mate #Pairs #PE #Reads #MatePair

Scrubbing long reads https://dazzlerblog.wordpress.com/2017/04/22/1344/ #Scrub #Long #Reads #Pacbio

Long read extraction https://github.com/rrwick/Unicycler/wiki/Read-extraction #Reads #Extractions #Long #PacBio #Ont

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

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

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

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

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

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

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