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questions
1
vote
3
replies
3.2k
views
What is the Sleuth intercept and how can Sleuth be used when you have >2 treatment types?
RNA-Seq
sleuth
kallisto
salmon
DTE
updated 5.4 years ago by
lalvarez
▴ 10 • written 7.2 years ago by
james.lloyd
▴ 100
2
votes
4
replies
2.5k
views
Looking for changes in expression of transposable elements in human cells
RNA-Seq
transposable elements
expression
updated 4.9 years ago by
mudasir01biotech
▴ 10 • written 7.5 years ago by
james.lloyd
▴ 100
0
votes
0
replies
1.7k
views
Repeat masked GFF3 not being converted to GTF
GTF
GFF
GFF3
Cufflinks
6.4 years ago by
james.lloyd
▴ 100
2
votes
2
replies
6.4k
views
ggplot histogram normalize the tallest bin to 1 and adjust all others accordingly?
ggplot
r
plots
histogram
updated 7.4 years ago by
Selenocysteine
▴ 620 • written 7.4 years ago by
james.lloyd
▴ 100
5
votes
6
replies
5.9k
views
What does Ensembl/Genecode gene_type "processed_gene" really mean?
RNA-Seq
annotation
ensembl
updated 7.4 years ago by
i.sudbery
18k • written 7.5 years ago by
james.lloyd
▴ 100
4
votes
1
reply
48k
views
In ggplot, assign a variable/category to a specific color?
R
ggplot
plots
colors
updated 7.5 years ago by
Biostar
20 • written 7.7 years ago by
james.lloyd
▴ 100
1
vote
2
replies
1.9k
views
Find R color reference for colors in a palette?
R
ggplot
plots
colors
updated 7.7 years ago by
Alex Reynolds
35k • written 7.7 years ago by
james.lloyd
▴ 100
0
votes
1
reply
2.5k
views
Switch genomic coordinates to transcriptomic coordinates
RNA-Seq
fasta
coordinates
gene
updated 7.8 years ago by
slw287r
▴ 140 • written 7.8 years ago by
james.lloyd
▴ 100
5
votes
6
replies
2.8k
views
Unusual pyramid plot helpin R or matplotlib
R
plot
matplotlib
updated 7.9 years ago by
Selenocysteine
▴ 620 • written 7.9 years ago by
james.lloyd
▴ 100
2
votes
2
replies
4.2k
views
How to find transposable element genes in ensembl annotation
RNA-Seq
GTF
transposable_elements
Ensembl
updated 19 months ago by
Ram
43k • written 8.4 years ago by
james.lloyd
▴ 100
0
votes
0
replies
2.8k
views
Convert TAIR IDs to NCBI IDs for Gorilla
TAIR
GO
RNA-Seq
updated 22 months ago by
Ram
43k • written 8.6 years ago by
james.lloyd
▴ 100
0
votes
6
replies
2.0k
views
Would Tophat place 3-5 mismatches in a row if I raised default mismatches allowed?
RNA-Seq
Tophat
updated 16 months ago by
Ram
43k • written 8.7 years ago by
james.lloyd
▴ 100
3
votes
2
replies
2.8k
views
Annotate transcript isoforms from Cufflinks GTF with splicing types
Cufflinks
RNA-Seq
Splicing-Annotation
GTF
updated 15 months ago by
Ram
43k • written 8.8 years ago by
james.lloyd
▴ 100
0
votes
6
replies
3.1k
views
How many poor quality bases define a bad read (using fastx or equivalent)?
RNA-Seq
sequencing
quality
fastq
fastx
updated 21 months ago by
Ram
43k • written 9.0 years ago by
james.lloyd
▴ 100
0
votes
0
replies
1.4k
views
Efficiency of human or mouse iPS cells to muscle or liver cells
iPS-cells
stem-cells
ES-cells
RNA-Seq
updated 22 months ago by
Ram
43k • written 9.0 years ago by
james.lloyd
▴ 100
6
votes
17
replies
6.5k
views
Can you add a label key to heatscatter plot in R?
heatscatter()
visualization
heatscatter
R
updated 2.2 years ago by
Ram
43k • written 9.5 years ago by
james.lloyd
▴ 100
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