Showing : Fastq • reset
0
votes
1
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953
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
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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
votes
3
replies
1.3k
views
ShortRead Error message: invalid character '
shortread fastq
4.5 years ago lauren.fitch • 0
2
votes
3
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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
5.2k
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
votes
2
replies
5.1k
views
Converting Fastq to Fasta in R
R Bioinformatics Fastq Fasta
updated 5.3 years ago by 65k • written 5.3 years ago by • 0
0
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0
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872
views
Quantifying reporter expression to validate sequencing
alignment Fastq fasta
5.4 years ago A ▴ 40
0
votes
0
replies
954
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 7.4 years ago by 65k • written 7.4 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 7.5 years ago by 25k • written 7.5 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 9.0 years ago by 65k • written 9.0 years ago by • 0
2
votes
5
replies
1.8k
views
ShortRead trim sequence at specific position
shortread fastq
9.1 years ago • updated 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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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Answer: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error by James W. MacDonald 65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Votes
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
C: when to apply quantile normalization with voom in limma/voom framework with RNA-
A: How to know if I should use voomWithQualityWeights() or not?
A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
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