Showing : fastq • reset
0
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1
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949
views
Seqinr for FASTQ files?
fastq fast seqinr
updated 2.0 years ago by ★ 4.0k • written 2.0 years ago by • 0
7
votes
12
replies
4.7k
views
.fastq to .txt conversion for EdgeR package and merging two paired end sequence files
EdgeR normalization fastq txt TMM
updated 23 months ago by 50k • written 8.4 years ago by • 0
0
votes
3
replies
3.2k
views
How to count barcode sequences in a fastq file
fastq barcoding
updated 2.7 years ago by ★ 3.9k • written 2.7 years ago by ▴ 30
2
votes
3
replies
2.1k
views
error when reading fastq file
FastqCleaner fastq ShortRead
updated 3.1 years ago by 65k • written 3.1 years ago by • 0
3
votes
9
replies
8.9k
views
merge fastq.gz in R? (or in Windows?)
rnaseq bioconductor fastq
updated 3.4 years ago by • 0 • written 8.8 years ago by • 0
0
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3
replies
1.3k
views
ShortRead Error message: invalid character '
shortread fastq
4.5 years ago lauren.fitch • 0
2
votes
3
replies
1.4k
views
Boxplot function not showing all reads length on x-axis
boxplot reads fastq sequencing rsubread
updated 4.9 years ago by ★ 3.6k • written 4.9 years ago by ▴ 60
7
votes
4
replies
3.2k
views
Convert BAM to FASTQ
BAM FASTQ
updated 5.1 years ago by 25k • written 5.1 years ago by ▴ 30
7
votes
7
replies
5.1k
views
What are the methods to get count data per cell from single cell fastq given only R1, R2, and I1 fastq files
fastq single cell
updated 5.1 years ago by 50k • written 5.1 years ago by ▴ 350
0
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2
replies
5.0k
views
Converting Fastq to Fasta in R
R Bioinformatics Fastq Fasta
updated 5.2 years ago by 65k • written 5.2 years ago by • 0
0
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0
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865
views
Quantifying reporter expression to validate sequencing
alignment Fastq fasta
5.4 years ago A ▴ 40
0
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0
replies
951
views
Sequencing database tool in R: tracking Sanger and NGS of large-scale directed evolution projects
rmysql fastq seqinr ngs sangerseqr
6.0 years ago JoeMG • 0
4
votes
3
replies
1.5k
views
The ShortRead package does not handle quality score '~' (Q=93) found in PacBio fastq files
shortread pacbio fastq
updated 6.2 years ago by 25k • written 6.2 years ago by ▴ 50
3
votes
10
replies
4.4k
views
How to check that the reads in two fastq files are in the same order
shortread fastq
updated 7.3 years ago by 65k • written 7.3 years ago by ▴ 20
0
votes
2
replies
1.3k
views
How to start CrispRVariants with fastq file starting point
R crispr fastq
7.4 years ago kfburbach • 0
2
votes
1
reply
1.3k
views
Uniting SRA Data into a single file
R fastq SRA sradb
updated 7.4 years ago by 25k • written 7.4 years ago by • 0
0
votes
2
replies
2.7k
views
subset from fastq file
fastq
7.6 years ago KB ▴ 50
0
votes
1
reply
2.0k
views
Error downloading using SRAdb
fastq sradb ftp
updated 8.1 years ago by ▴ 170 • written 8.1 years ago by • 0
1
vote
9
replies
2.7k
views
need help manipulating fastq file
fastq
updated 8.6 years ago by 25k • written 8.6 years ago by ▴ 50
0
votes
2
replies
3.0k
views
Using RNA-Seq Workflow using Real Life FASTQ data - and Mouse Reference Genome
deseq2 deseqdataset rnaseqgene fastq reference genome
updated 8.9 years ago by 65k • written 8.9 years ago by • 0
2
votes
5
replies
1.8k
views
ShortRead trim sequence at specific position
shortread fastq
9.0 years ago danova_fr ▴ 20
5
votes
1
reply
3.1k
views
fastqSampler and writeFastq in shortread package
shortread fastq write
updated 9.2 years ago by 25k • written 9.2 years ago by ▴ 100
22 results • Page 1 of 1
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Replies
Comment: DESeq filtering specific to contrasts by Carlin95 • 0
But wouldn't this result in a different gene set for each analysis stratification? How can you then compare if maybe gene x comes up in Tim…
Comment: Reading huge bismark coverage files using bbseq::read.bismark by jacques.imbert • 0
Hello, Using nThread = 1L fixed the issue. Thank you for your time and help.
Comment: Error in champ.load(): The following specified files do not exist by Basti ▴ 760
The error stems from the Basename column, please see solution here : https://support.bioconductor.org/p/p132482/
Comment: FilterByExpr low counts with small sample size by Gordon Smyth 50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures by Gordon Smyth 50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Votes
Comment: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
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