Showing: shortread • reset
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12
votes
3
answers
120
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5 follow
3
answers
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 17 days ago by Raito92 • 30 • updated 13 days ago by Aspie96 • 60
10
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5
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10 follow
5
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Installing ShortRead - error: zlib not found even with zlib in LD_LIBRARY_PATH
shortread dependency package installation written 11 months ago by joseph.elsherbini • 40 • updated 6 weeks ago by tssir5885 • 0
0
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2
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609
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2
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Solexa fastq files and BLAT
cancer biostrings shortread written 10.3 years ago by Daniel Brewer • 1.9k • updated 3 months ago by Bioconductor Community ♦♦ 0
1
vote
1
answer
207
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1
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error: incorrect number of fields (1) input.bam:1
shortread readaligned written 4 months ago by kspata • 10 • updated 4 months ago by Martin Morgan ♦♦ 23k
1
vote
1
answer
185
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1
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Remove reads from raw fastq
biostrings shortread written 5 months ago by ferbecneu • 0 • updated 5 months ago by Gordon Smyth ♦ 37k
0
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2
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185
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2
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Retrieving specific sequences from a fastq
biostrings shortread written 6 months ago by ferbecneu • 0
0
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1
answer
232
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1
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Should I use legacy functions in ShortRead package?
shortread written 13 months ago by Frocha • 10 • updated 13 months ago by Martin Morgan ♦♦ 23k
4
votes
1
answer
279
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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 14 months ago by benjamin.j.callahan • 40 • updated 14 months ago by Martin Morgan ♦♦ 23k
4
votes
2
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404
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2
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No BAM option in readAligned from the ShortRead package
shortread nucler bioconductor bam file written 14 months ago by jfgout • 10 • updated 14 months ago by Dario Strbenac • 1.4k
1
vote
1
answer
302
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1
answer
bplapply with ShortRead functions
shortread biocparallel written 14 months ago by Vivek.b • 100 • updated 14 months ago by Martin Morgan ♦♦ 23k
1
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1
answer
333
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1
answer
Reading fastq file after narrowing sequences
shortread fastqstreamer written 17 months ago by ioannis.vardaxis • 30
0
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2
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538
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2
answers
readFastq error reading Nanopore fastq
shortread written 20 months ago by kamal.fartiyal84 • 10
5
votes
1
answer
529
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1
answer
strsplit method for DNAStringSet objects
biostrings shortread written 2.0 years ago by jma1991 • 30 • updated 2.0 years ago by Hervé Pagès ♦♦ 13k
0
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1
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1.0k
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1
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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
1
vote
2
answers
501
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2
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FastqStreamer and qualitytype
shortread written 2.6 years ago by David • 860
1
vote
1
answer
504
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1
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Shortread convert S4 vector qualityScore to vector
shortread written 2.7 years ago by Radek • 50 • updated 2.7 years ago by Martin Morgan ♦♦ 23k
0
votes
0
answers
535
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0
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make: *** [ShortRead.so] Error 1
shortread written 2.9 years ago by mictadlo • 0 • updated 2.9 years ago by Martin Morgan ♦♦ 23k
0
votes
1
answer
458
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1
answer
Error Raised When Trying To Use pileup()
biostrings shortread hilbertvis rsamtools written 2.9 years ago by travis.m.couture • 0 • updated 2.9 years ago by Martin Morgan ♦♦ 23k
5
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0
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1.6k
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0
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Tutorial: Prototyping An Analysis Pipeline For Lexogen 3'-UTR RNA-seq In Bioconductor
shortread rsubread tutorial ensembldb written 3.0 years ago by phil.chapman • 140
1
vote
1
answer
716
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1
answer
ShortRead quality assessment functions (qa and qa2) from ShortReadQ object
shortread written 3.0 years ago by phil.chapman • 140 • updated 3.0 years ago by Martin Morgan ♦♦ 23k
5
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1
answer
752
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1
answer
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
0
votes
0
answers
631
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0
answers
Error with qa() in package ShortRead when checking for adapter contamination.
shortread written 3.2 years ago by Diego Diez • 730
0
votes
0
answers
571
views
0
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ShortRead::FastqStreamer() causes segfault
shortread segfault written 3.3 years ago by Watal M. Iwasaki • 10
4
votes
1
answer
997
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1
answer
IRanges/ShortRead causing crash?
biostrings iranges shortread written 3.4 years ago by pavitrarc • 20 • updated 3.4 years ago by Martin Morgan ♦♦ 23k
1
vote
1
answer
1.2k
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1
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Trim DNAStringSets using ShortRead while keeping the primer sequences?
sequencing biostrings shortread written 3.4 years ago by steven.everman • 10 • updated 3.4 years ago by Martin Morgan ♦♦ 23k
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