Search
1
vote
1
answer
74
views
1
answer
Remove reads from raw fastq
biostrings shortread written 13 days ago by ferbecneu • 0 • updated 13 days ago by Gordon Smyth ♦ 35k
0
votes
2
answers
93
views
2
answers
Retrieving specific sequences from a fastq
biostrings shortread written 5 weeks ago by ferbecneu • 0
7
votes
3
answers
1.2k
views
6 follow
3
answers
Installing ShortRead - error: zlib not found even with zlib in LD_LIBRARY_PATH
shortread dependency package installation written 6 months ago by joseph.elsherbini • 30 • updated 3 months ago by olavur • 10
0
votes
1
answer
143
views
1
answer
Should I use legacy functions in ShortRead package?
shortread written 8 months ago by Frocha • 10 • updated 8 months ago by Martin Morgan ♦♦ 22k
4
votes
1
answer
199
views
1
answer
The ShortRead package does not handle quality score '~' (Q=93) found in PacBio fastq files
shortread fastq pacbio written 8 months ago by benjamin.j.callahan • 40 • updated 8 months ago by Martin Morgan ♦♦ 22k
4
votes
2
answers
300
views
2
answers
No BAM option in readAligned from the ShortRead package
shortread nucler bioconductor bam file written 9 months ago by jfgout • 10 • updated 9 months ago by Dario Strbenac • 1.4k
1
vote
1
answer
220
views
1
answer
bplapply with ShortRead functions
shortread biocparallel written 9 months ago by Vivek.b • 90 • updated 9 months ago by Martin Morgan ♦♦ 22k
1
vote
1
answer
253
views
1
answer
Reading fastq file after narrowing sequences
shortread fastqstreamer written 11 months ago by ioannis.vardaxis • 20
0
votes
2
answers
475
views
2
answers
readFastq error reading Nanopore fastq
shortread written 14 months ago by kamal.fartiyal84 • 10
5
votes
1
answer
427
views
1
answer
strsplit method for DNAStringSet objects
biostrings shortread written 19 months ago by jma1991 • 30 • updated 19 months ago by Hervé Pagès ♦♦ 13k
0
votes
1
answer
793
views
1
answer
How to check that the reads in two fastq files are in the same order
shortread fastq written 23 months ago by Frocha • 10 • updated 23 months ago by James W. MacDonald ♦ 48k
1
vote
2
answers
439
views
2
answers
FastqStreamer and qualitytype
shortread written 2.2 years ago by David • 860
1
vote
1
answer
436
views
1
answer
Shortread convert S4 vector qualityScore to vector
shortread written 2.2 years ago by Radek • 40 • updated 2.2 years ago by Martin Morgan ♦♦ 22k
0
votes
0
answers
473
views
0
answers
make: *** [ShortRead.so] Error 1
shortread written 2.4 years ago by mictadlo • 0 • updated 2.4 years ago by Martin Morgan ♦♦ 22k
0
votes
1
answer
385
views
1
answer
Error Raised When Trying To Use pileup()
biostrings shortread hilbertvis rsamtools written 2.5 years ago by travis.m.couture • 0 • updated 2.5 years ago by Martin Morgan ♦♦ 22k
5
votes
0
answers
1.5k
views
0
answers
Tutorial: Prototyping An Analysis Pipeline For Lexogen 3'-UTR RNA-seq In Bioconductor
shortread rsubread tutorial ensembldb written 2.6 years ago by phil.chapman • 140
1
vote
1
answer
645
views
1
answer
ShortRead quality assessment functions (qa and qa2) from ShortReadQ object
shortread written 2.6 years ago by phil.chapman • 140 • updated 2.6 years ago by Martin Morgan ♦♦ 22k
5
votes
1
answer
634
views
1
answer
Using ShortRead (or other) to trim from pattern match onwards
shortread written 2.6 years ago by chapmandu2 • 20 • updated 2.6 years ago by Martin Morgan ♦♦ 22k
0
votes
0
answers
556
views
0
answers
Error with qa() in package ShortRead when checking for adapter contamination.
shortread written 2.7 years ago by Diego Diez • 730
0
votes
0
answers
488
views
0
answers
ShortRead::FastqStreamer() causes segfault
shortread segfault written 2.9 years ago by Watal M. Iwasaki • 10
4
votes
1
answer
905
views
1
answer
IRanges/ShortRead causing crash?
biostrings iranges shortread written 3.0 years ago by pavitrarc • 20 • updated 3.0 years ago by Martin Morgan ♦♦ 22k
1
vote
1
answer
1.0k
views
1
answer
Trim DNAStringSets using ShortRead while keeping the primer sequences?
sequencing biostrings shortread written 3.0 years ago by steven.everman • 10 • updated 3.0 years ago by Martin Morgan ♦♦ 22k
0
votes
0
answers
581
views
0
answers
ShortRead Error in slot(object, ".srlist")
shortread software error written 3.1 years ago by sbrown36 • 0 • updated 3.1 years ago by Martin Morgan ♦♦ 22k
1
vote
1
answer
677
views
1
answer
Why I'm getting an error when using ShortRead package's FastqStreamerList function?
shortread fastqsteamerlist written 3.2 years ago by simonas.juzenas • 10 • updated 3.2 years ago by Martin Morgan ♦♦ 22k
1
vote
1
answer
1.1k
views
1
answer
FastqSampler with trimmed paired-end reads
shortread written 3.4 years ago by Arne Muller • 20 • updated 3.4 years ago by Martin Morgan ♦♦ 22k
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