Showing : Fastq • reset
0
votes
1
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1.2k
views
Seqinr for FASTQ files?
fastq fast seqinr
updated 2.7 years ago by ★ 4.6k • written 2.7 years ago by • 0
7
votes
12
replies
5.4k
views
.fastq to .txt conversion for EdgeR package and merging two paired end sequence files
EdgeR normalization fastq txt TMM
updated 2.6 years ago by 52k • written 9.1 years ago by • 0
0
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3
replies
3.7k
views
How to count barcode sequences in a fastq file
fastq barcoding
updated 3.4 years ago by ★ 4.0k • written 3.4 years ago by ▴ 30
2
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3
replies
2.6k
views
error when reading fastq file
FastqCleaner fastq ShortRead
updated 3.8 years ago by 67k • written 3.8 years ago by • 0
3
votes
9
replies
9.9k
views
merge fastq.gz in R? (or in Windows?)
rnaseq bioconductor fastq
updated 4.0 years ago by • 0 • written 9.4 years ago by • 0
0
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3
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1.5k
views
ShortRead Error message: invalid character '
shortread fastq
5.2 years ago lauren.fitch • 0
2
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3
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1.8k
views
Boxplot function not showing all reads length on x-axis
boxplot reads fastq sequencing rsubread
updated 5.5 years ago by ★ 3.6k • written 5.6 years ago by ▴ 60
7
votes
4
replies
3.8k
views
Convert BAM to FASTQ
BAM FASTQ
updated 5.7 years ago by 25k • written 5.7 years ago by ▴ 30
7
votes
7
replies
5.9k
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 5.8 years ago by 52k • written 5.8 years ago by ▴ 380
0
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2
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5.8k
views
Converting Fastq to Fasta in R
R Bioinformatics Fastq Fasta
updated 5.9 years ago by 67k • written 5.9 years ago by • 0
0
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0
replies
1.0k
views
Quantifying reporter expression to validate sequencing
alignment Fastq fasta
6.1 years ago A ▴ 40
0
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0
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1.1k
views
Sequencing database tool in R: tracking Sanger and NGS of large-scale directed evolution projects
rmysql fastq seqinr ngs sangerseqr
6.6 years ago JoeMG • 0
4
votes
3
replies
1.8k
views
The ShortRead package does not handle quality score '~' (Q=93) found in PacBio fastq files
shortread pacbio fastq
updated 6.8 years ago by 25k • written 6.8 years ago by ▴ 50
3
votes
10
replies
5.3k
views
How to check that the reads in two fastq files are in the same order
shortread fastq
updated 8.0 years ago by 67k • written 8.0 years ago by ▴ 20
0
votes
2
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1.5k
views
How to start CrispRVariants with fastq file starting point
R crispr fastq
8.1 years ago kfburbach • 0
2
votes
1
reply
1.5k
views
Uniting SRA Data into a single file
R fastq SRA sradb
updated 8.1 years ago by 25k • written 8.1 years ago by • 0
0
votes
2
replies
3.0k
views
subset from fastq file
fastq
8.3 years ago KB ▴ 50
0
votes
1
reply
2.2k
views
Error downloading using SRAdb
fastq sradb ftp
updated 8.8 years ago by ▴ 170 • written 8.8 years ago by • 0
1
vote
9
replies
3.3k
views
need help manipulating fastq file
fastq
updated 9.2 years ago by 25k • written 9.2 years ago by ▴ 50
0
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2
replies
3.3k
views
Using RNA-Seq Workflow using Real Life FASTQ data - and Mouse Reference Genome
deseq2 deseqdataset rnaseqgene fastq reference genome
updated 9.6 years ago by 67k • written 9.6 years ago by • 0
2
votes
5
replies
2.1k
views
ShortRead trim sequence at specific position
shortread fastq
9.7 years ago danova_fr ▴ 20
5
votes
1
reply
3.4k
views
fastqSampler and writeFastq in shortread package
shortread fastq write
updated 9.9 years ago by 25k • written 9.9 years ago by ▴ 100
22 results • Page 1 of 1
Recent ...
Replies
Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Votes
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
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