Showing : Fastq • reset
0
votes
1
reply
1.4k
views
Seqinr for FASTQ files?
fastq fast seqinr
updated 3.4 years ago by ★ 4.9k • written 3.4 years ago by • 0
7
votes
12
replies
6.1k
views
.fastq to .txt conversion for EdgeR package and merging two paired end sequence files
EdgeR normalization fastq txt TMM
updated 3.3 years ago by 52k • written 9.8 years ago by • 0
0
votes
3
replies
4.3k
views
How to count barcode sequences in a fastq file
fastq barcoding
updated 4.1 years ago by ★ 4.0k • written 4.1 years ago by ▴ 30
2
votes
3
replies
3.1k
views
error when reading fastq file
FastqCleaner fastq ShortRead
updated 4.5 years ago by 68k • written 4.5 years ago by • 0
3
votes
9
replies
11k
views
merge fastq.gz in R? (or in Windows?)
rnaseq bioconductor fastq
updated 4.7 years ago by • 0 • written 10.1 years ago by • 0
0
votes
3
replies
1.7k
views
ShortRead Error message: invalid character '
shortread fastq
5.9 years ago lauren.fitch • 0
2
votes
3
replies
2.1k
views
Boxplot function not showing all reads length on x-axis
boxplot reads fastq sequencing rsubread
updated 6.2 years ago by ★ 3.6k • written 6.3 years ago by ▴ 60
7
votes
4
replies
4.3k
views
Convert BAM to FASTQ
BAM FASTQ
updated 6.4 years ago by 25k • written 6.4 years ago by ▴ 30
7
votes
7
replies
6.8k
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 6.5 years ago by 52k • written 6.5 years ago by ▴ 380
0
votes
2
replies
6.5k
views
Converting Fastq to Fasta in R
R Bioinformatics Fastq Fasta
updated 6.6 years ago by 68k • written 6.6 years ago by • 0
0
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0
replies
1.1k
views
Quantifying reporter expression to validate sequencing
alignment Fastq fasta
6.8 years ago A ▴ 60
0
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0
replies
1.3k
views
Sequencing database tool in R: tracking Sanger and NGS of large-scale directed evolution projects
rmysql fastq seqinr ngs sangerseqr
7.3 years ago JoeMG • 0
4
votes
3
replies
2.0k
views
The ShortRead package does not handle quality score '~' (Q=93) found in PacBio fastq files
shortread pacbio fastq
updated 7.5 years ago by 25k • written 7.5 years ago by ▴ 50
3
votes
10
replies
6.0k
views
How to check that the reads in two fastq files are in the same order
shortread fastq
updated 8.7 years ago by 68k • written 8.7 years ago by ▴ 20
0
votes
2
replies
1.7k
views
How to start CrispRVariants with fastq file starting point
R crispr fastq
8.8 years ago kfburbach • 0
2
votes
1
reply
1.8k
views
Uniting SRA Data into a single file
R fastq SRA sradb
updated 8.8 years ago by 25k • written 8.8 years ago by • 0
0
votes
2
replies
3.3k
views
subset from fastq file
fastq
9.0 years ago KB ▴ 50
0
votes
1
reply
2.4k
views
Error downloading using SRAdb
fastq sradb ftp
updated 9.5 years ago by ▴ 170 • written 9.5 years ago by • 0
1
vote
9
replies
3.9k
views
need help manipulating fastq file
fastq
updated 9.9 years ago by 25k • written 9.9 years ago by ▴ 50
0
votes
2
replies
3.6k
views
Using RNA-Seq Workflow using Real Life FASTQ data - and Mouse Reference Genome
deseq2 deseqdataset rnaseqgene fastq reference genome
updated 10.3 years ago by 68k • written 10.3 years ago by • 0
2
votes
5
replies
2.3k
views
ShortRead trim sequence at specific position
shortread fastq
10.4 years ago danova_fr ▴ 20
5
votes
1
reply
3.6k
views
fastqSampler and writeFastq in shortread package
shortread fastq write
updated 10.6 years ago by 25k • written 10.6 years ago by ▴ 100
22 results • Page 1 of 1
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Comment: WGCNA analysis on RNAseq and proteoimcs data by sum31278 • 0
Hi sagigordon, Can you share how you performed WGCNA analysis for proteomics data? Thanks
Comment: European Bioconductor Conference 2023 planning by inadequate.peacock.iiag • 0
I once faced a dilemma similar to this when coordinating a smaller local event; despite initial hesitation, I learned invaluable skills and…
Comment: ROAST compare results with complex design by Gordon Smyth 52k
It's also worth pointing out that the syntax for `camera` and `mroast` is the same, so I wonder how OP did the earlier `camera` analysis.
Answer: ROAST compare results with complex design by James W. MacDonald 68k
You are specifying that the last column of your design should be used as the contrast. You should instead use `contrast[,1]`, which will us…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Yes. You can infer that by figuring out what each coefficient measures. Here is your design matrix: ``` > targets ID Name phase G…
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Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
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