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9
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Installing ShortRead - error: zlib not found even with zlib in LD_LIBRARY_PATH
shortread dependency package installation written 10 months ago by joseph.elsherbini • 30 • updated 15 days ago by tssir5885 • 0
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2
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Solexa fastq files and BLAT
cancer biostrings shortread written 10.2 years ago by Daniel Brewer • 1.9k • updated 10 weeks ago by Bioconductor Community ♦♦ 0
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error: incorrect number of fields (1) input.bam:1
shortread readaligned written 3 months ago by kspata • 10 • updated 3 months ago by Martin Morgan ♦♦ 23k
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1
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Remove reads from raw fastq
biostrings shortread written 4 months ago by ferbecneu • 0 • updated 4 months ago by Gordon Smyth ♦ 36k
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Retrieving specific sequences from a fastq
biostrings shortread written 5 months ago by ferbecneu • 0
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1
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212
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Should I use legacy functions in ShortRead package?
shortread written 12 months ago by Frocha • 10 • updated 12 months ago by Martin Morgan ♦♦ 23k
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The ShortRead package does not handle quality score '~' (Q=93) found in PacBio fastq files
shortread fastq pacbio written 13 months ago by benjamin.j.callahan • 40 • updated 13 months ago by Martin Morgan ♦♦ 23k
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No BAM option in readAligned from the ShortRead package
shortread nucler bioconductor bam file written 13 months ago by jfgout • 10 • updated 13 months ago by Dario Strbenac • 1.4k
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bplapply with ShortRead functions
shortread biocparallel written 13 months ago by Vivek.b • 90 • updated 13 months ago by Martin Morgan ♦♦ 23k
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315
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Reading fastq file after narrowing sequences
shortread fastqstreamer written 16 months ago by ioannis.vardaxis • 20
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readFastq error reading Nanopore fastq
shortread written 18 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 23 months ago by jma1991 • 30 • updated 23 months ago by Hervé Pagès ♦♦ 13k
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How to check that the reads in two fastq files are in the same order
shortread fastq written 2.3 years ago by Frocha • 10 • updated 2.3 years ago by James W. MacDonald ♦ 49k
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2
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489
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FastqStreamer and qualitytype
shortread written 2.5 years ago by David • 860
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487
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1
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Shortread convert S4 vector qualityScore to vector
shortread written 2.6 years ago by Radek • 50 • updated 2.6 years ago by Martin Morgan ♦♦ 23k
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make: *** [ShortRead.so] Error 1
shortread written 2.8 years ago by mictadlo • 0 • updated 2.8 years ago by Martin Morgan ♦♦ 23k
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445
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Error Raised When Trying To Use pileup()
biostrings shortread hilbertvis rsamtools written 2.8 years ago by travis.m.couture • 0 • updated 2.8 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 2.9 years ago by phil.chapman • 140
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ShortRead quality assessment functions (qa and qa2) from ShortReadQ object
shortread written 2.9 years ago by phil.chapman • 140 • updated 2.9 years ago by Martin Morgan ♦♦ 23k
5
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729
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Using ShortRead (or other) to trim from pattern match onwards
shortread written 3.0 years ago by chapmandu2 • 20 • updated 3.0 years ago by Martin Morgan ♦♦ 23k
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Error with qa() in package ShortRead when checking for adapter contamination.
shortread written 3.1 years ago by Diego Diez • 730
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550
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ShortRead::FastqStreamer() causes segfault
shortread segfault written 3.3 years ago by Watal M. Iwasaki • 10
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1
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IRanges/ShortRead causing crash?
biostrings iranges shortread written 3.3 years ago by pavitrarc • 20 • updated 3.3 years ago by Martin Morgan ♦♦ 23k
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Trim DNAStringSets using ShortRead while keeping the primer sequences?
sequencing biostrings shortread written 3.3 years ago by steven.everman • 10 • updated 3.3 years ago by Martin Morgan ♦♦ 23k
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ShortRead Error in slot(object, ".srlist")
shortread software error written 3.5 years ago by sbrown36 • 0 • updated 3.5 years ago by Martin Morgan ♦♦ 23k
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