Showing : Fastq • reset
0
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1.3k
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Seqinr for FASTQ files?
fastq fast seqinr
updated 3.1 years ago by ★ 4.8k • written 3.1 years ago by • 0
7
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12
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5.8k
views
.fastq to .txt conversion for EdgeR package and merging two paired end sequence files
EdgeR normalization fastq txt TMM
updated 3.0 years ago by 52k • written 9.4 years ago by • 0
0
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3
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4.1k
views
How to count barcode sequences in a fastq file
fastq barcoding
updated 3.7 years ago by ★ 4.0k • written 3.7 years ago by ▴ 30
2
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3
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2.9k
views
error when reading fastq file
FastqCleaner fastq ShortRead
updated 4.1 years ago by 68k • written 4.1 years ago by • 0
3
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9
replies
10k
views
merge fastq.gz in R? (or in Windows?)
rnaseq bioconductor fastq
updated 4.4 years ago by • 0 • written 9.8 years ago by • 0
0
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3
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1.6k
views
ShortRead Error message: invalid character '
shortread fastq
5.5 years ago lauren.fitch • 0
2
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3
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1.9k
views
Boxplot function not showing all reads length on x-axis
boxplot reads fastq sequencing rsubread
updated 5.9 years ago by ★ 3.6k • written 5.9 years ago by ▴ 60
7
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4
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4.1k
views
Convert BAM to FASTQ
BAM FASTQ
updated 6.1 years ago by 25k • written 6.1 years ago by ▴ 30
7
votes
7
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6.5k
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 6.1 years ago by 52k • written 6.1 years ago by ▴ 380
0
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2
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6.3k
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Converting Fastq to Fasta in R
R Bioinformatics Fastq Fasta
updated 6.3 years ago by 68k • written 6.3 years ago by • 0
0
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0
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1.1k
views
Quantifying reporter expression to validate sequencing
alignment Fastq fasta
6.4 years ago A ▴ 60
0
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0
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1.2k
views
Sequencing database tool in R: tracking Sanger and NGS of large-scale directed evolution projects
rmysql fastq seqinr ngs sangerseqr
7.0 years ago JoeMG • 0
4
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3
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1.9k
views
The ShortRead package does not handle quality score '~' (Q=93) found in PacBio fastq files
shortread pacbio fastq
updated 7.2 years ago by 25k • written 7.2 years ago by ▴ 50
3
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10
replies
5.7k
views
How to check that the reads in two fastq files are in the same order
shortread fastq
updated 8.4 years ago by 68k • written 8.4 years ago by ▴ 20
0
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2
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1.6k
views
How to start CrispRVariants with fastq file starting point
R crispr fastq
8.4 years ago kfburbach • 0
2
votes
1
reply
1.6k
views
Uniting SRA Data into a single file
R fastq SRA sradb
updated 8.5 years ago by 25k • written 8.5 years ago by • 0
0
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2
replies
3.2k
views
subset from fastq file
fastq
8.6 years ago KB ▴ 50
0
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1
reply
2.3k
views
Error downloading using SRAdb
fastq sradb ftp
updated 9.1 years ago by ▴ 170 • written 9.1 years ago by • 0
1
vote
9
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3.7k
views
need help manipulating fastq file
fastq
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 50
0
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2
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3.5k
views
Using RNA-Seq Workflow using Real Life FASTQ data - and Mouse Reference Genome
deseq2 deseqdataset rnaseqgene fastq reference genome
updated 10.0 years ago by 68k • written 10.0 years ago by • 0
2
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5
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2.2k
views
ShortRead trim sequence at specific position
shortread fastq
10.1 years ago • updated 10.0 years ago danova_fr ▴ 20
5
votes
1
reply
3.5k
views
fastqSampler and writeFastq in shortread package
shortread fastq write
updated 10.2 years ago by 25k • written 10.2 years ago by ▴ 100
22 results • Page 1 of 1
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Comment: error in ChAMP loading file by janwilseo • 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis by donnycrimson • 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender by donnycrimson • 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list' by donnycrimson • 0
Have you considered streamlining how you handle data input to mitigate these issues. It might help to define the parameters more strictly …
Votes
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
A: Understanding contrasts limma
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