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14
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5
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3.7k
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12 follow
5
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Installing ShortRead - error: zlib not found even with zlib in LD_LIBRARY_PATH
shortread dependency package installation written 15 months ago by joseph.elsherbini • 60 • updated 11 weeks ago by January Weiner • 240
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No method for coercing this S4 class to a vector, as trying to import my own data rather than using SRA in the workflow RnaSeqGeneEdgeRQL
shortread rsubread rnaseqgeneedgerql written 4 months ago by Raito92 • 40 • updated 4 months ago by Aspie96 • 60
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2
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Solexa fastq files and BLAT
cancer biostrings shortread written 10.6 years ago by Daniel Brewer • 1.9k • updated 7 months ago by Bioconductor Community ♦♦ 0
1
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1
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error: incorrect number of fields (1) input.bam:1
shortread readaligned written 8 months ago by kspata • 10 • updated 8 months ago by Martin Morgan ♦♦ 23k
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1
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Remove reads from raw fastq
biostrings shortread written 9 months ago by ferbecneu • 0 • updated 9 months ago by Gordon Smyth ♦ 38k
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2
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Retrieving specific sequences from a fastq
biostrings shortread written 10 months ago by ferbecneu • 0
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1
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278
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1
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Should I use legacy functions in ShortRead package?
shortread written 17 months ago by Frocha • 10 • updated 17 months ago by Martin Morgan ♦♦ 23k
4
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1
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345
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1
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The ShortRead package does not handle quality score '~' (Q=93) found in PacBio fastq files
shortread fastq pacbio written 18 months ago by benjamin.j.callahan • 40 • updated 18 months ago by Martin Morgan ♦♦ 23k
4
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No BAM option in readAligned from the ShortRead package
shortread nucler bioconductor bam file written 18 months ago by jfgout • 10 • updated 18 months ago by Dario Strbenac • 1.5k
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1
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bplapply with ShortRead functions
shortread biocparallel written 18 months ago by Vivek.b • 100 • updated 18 months ago by Martin Morgan ♦♦ 23k
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1
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Reading fastq file after narrowing sequences
shortread fastqstreamer written 21 months ago by ioannis.vardaxis • 30
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2
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readFastq error reading Nanopore fastq
shortread written 24 months ago by kamal.fartiyal84 • 10
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1
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1
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strsplit method for DNAStringSet objects
biostrings shortread written 2.4 years ago by jma1991 • 30 • updated 2.4 years ago by Hervé Pagès ♦♦ 14k
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How to check that the reads in two fastq files are in the same order
shortread fastq written 2.7 years ago by Frocha • 10 • updated 2.7 years ago by James W. MacDonald ♦ 50k
1
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2
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546
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FastqStreamer and qualitytype
shortread written 3.0 years ago by David • 860
1
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1
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556
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1
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Shortread convert S4 vector qualityScore to vector
shortread written 3.0 years ago by Radek • 60 • updated 3.0 years ago by Martin Morgan ♦♦ 23k
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580
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make: *** [ShortRead.so] Error 1
shortread written 3.2 years ago by mictadlo • 0 • updated 3.2 years ago by Martin Morgan ♦♦ 23k
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1
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510
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Error Raised When Trying To Use pileup()
biostrings shortread hilbertvis rsamtools written 3.2 years ago by travis.m.couture • 0 • updated 3.2 years ago by Martin Morgan ♦♦ 23k
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Tutorial: Prototyping An Analysis Pipeline For Lexogen 3'-UTR RNA-seq In Bioconductor
shortread rsubread tutorial ensembldb written 3.4 years ago by phil.chapman • 140
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ShortRead quality assessment functions (qa and qa2) from ShortReadQ object
shortread written 3.4 years ago by phil.chapman • 140 • updated 3.4 years ago by Martin Morgan ♦♦ 23k
5
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Using ShortRead (or other) to trim from pattern match onwards
shortread written 3.4 years ago by chapmandu2 • 20 • updated 3.4 years ago by Martin Morgan ♦♦ 23k
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671
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Error with qa() in package ShortRead when checking for adapter contamination.
shortread written 3.5 years ago by Diego Diez • 730
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615
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0
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ShortRead::FastqStreamer() causes segfault
shortread segfault written 3.7 years ago by Watal M. Iwasaki • 10
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1
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1
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IRanges/ShortRead causing crash?
biostrings iranges shortread written 3.8 years ago by pavitrarc • 20 • updated 3.8 years ago by Martin Morgan ♦♦ 23k
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Trim DNAStringSets using ShortRead while keeping the primer sequences?
sequencing biostrings shortread written 3.8 years ago by steven.everman • 10 • updated 3.8 years ago by Martin Morgan ♦♦ 23k
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