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Showing :
questions
1
vote
2
replies
282
views
A question about using HISAT2 without biological replicates
RNA-seq
HISAT2
8 weeks ago by
vinayjrao
▴ 250
0
votes
2
replies
574
views
Seeking assistance in scRNA Seq
python
scRNA-Seq
R
17 months ago by
vinayjrao
▴ 250
0
votes
2
replies
620
views
Merging bam files
bam
merge
rna-seq
updated 22 months ago by
biofalconch
★ 1.1k • written 22 months ago by
vinayjrao
▴ 250
0
votes
0
replies
443
views
Variants in untargeted genes identified after targeted exome sequencing analysis
snp
exome
2.5 years ago by
vinayjrao
▴ 250
2
votes
10
replies
2.0k
views
Unable to overcome troubles in whole exome analysis
exome-seq
markduplicates
picard
updated 22 months ago by
Ram
43k • written 2.6 years ago by
vinayjrao
▴ 250
0
votes
0
replies
611
views
How to annotate variants against hs37d5?
SNP
annotation
3.0 years ago by
vinayjrao
▴ 250
6
votes
7
replies
21k
views
Calculating fpkm from raw counts
RNA-Seq
R
fpkm
updated 2.6 years ago by
TheVavish
▴ 10 • written 6.0 years ago by
vinayjrao
▴ 250
0
votes
0
replies
881
views
Is it possible to call variants using cram files?
next-gen
sequencing
SNP
3.1 years ago by
vinayjrao
▴ 250
0
votes
0
replies
966
views
Unable to convert from cram to bam
SNP
software error
sequencing
next-gen
3.1 years ago by
vinayjrao
▴ 250
2
votes
8
replies
1.6k
views
Ignore replacing a comma within quotes
sed
awk
regex
3.2 years ago by
vinayjrao
▴ 250
10
votes
4
replies
1.8k
views
Recalibrating variants in GATK4.1 as compared to GATK3.7
SNP
GATK
updated 3.3 years ago by
DareDevil
★ 4.3k • written 3.3 years ago by
vinayjrao
▴ 250
2
votes
3
replies
715
views
Compare elements between rows and columns
awk
shell
RNA-Seq
updated 23 months ago by
Ram
43k • written 3.3 years ago by
vinayjrao
▴ 250
3
votes
4
replies
1.4k
views
Converting CRAM slices to get a CRAM file
samtools
updated 3.4 years ago by
jkbonfield
★ 1.2k • written 3.4 years ago by
vinayjrao
▴ 250
3
votes
9
replies
2.6k
views
Create files in multiple directories via for loop
shell
linux
3.4 years ago by
vinayjrao
▴ 250
1
vote
3
replies
2.0k
views
Converting tsv into bam file
genome
sequencing
R
linux
updated 3.4 years ago by
swbarnes2
14k • written 3.4 years ago by
vinayjrao
▴ 250
3
votes
3
replies
1.6k
views
How to login to dowload datasets from EGA - European Genome-phenome Archive?
java
3.4 years ago by
vinayjrao
▴ 250
1
vote
1
reply
636
views
Appending output to a vector in R
R
updated 3.6 years ago by
antonioggsousa
3.2k • written 3.6 years ago by
vinayjrao
▴ 250
0
votes
3
replies
1.9k
views
Annotating VCF files
snp
3.6 years ago by
vinayjrao
▴ 250
0
votes
1
reply
965
views
Which of the output files of TrimGalore! must I align?
sequencing
alignment
SNP
3.6 years ago by
vinayjrao
▴ 250
0
votes
4
replies
1.1k
views
How to annotate variants offline using ANNOVAR?
SNP
3.8 years ago by
vinayjrao
▴ 250
0
votes
0
replies
563
views
Filtering wANNOVAR output on terminal
SNP
3.8 years ago by
vinayjrao
▴ 250
1
vote
1
reply
741
views
What type of duplicates are to be removed while analyzing whole exome data?
SNP
Exome-Seq
3.8 years ago by
vinayjrao
▴ 250
7
votes
5
replies
1.0k
views
Correlation between coverage and variant calling
SNP
variant-calling
Exome-Seq
updated 6 months ago by
Ram
43k • written 4.2 years ago by
vinayjrao
▴ 250
2
votes
14
replies
9.0k
views
Ballgown Error in file(file, "rt") : invalid 'description' argument
RNA-Seq
ballgown
updated 4.7 years ago by
wood
▴ 10 • written 6.7 years ago by
vinayjrao
▴ 250
11
votes
1
reply
49k
views
Interpreting GSEA enrichment plots/results
RNA-Seq
gsea
updated 4.7 years ago by
restonpiston
▴ 60 • written 5.1 years ago by
vinayjrao
▴ 250
3
votes
2
replies
1.0k
views
Filtering 2-fold differentially expressed genes
R
Microarray
updated 4.8 years ago by
Nicolas Rosewick
11k • written 4.8 years ago by
vinayjrao
▴ 250
4
votes
4
replies
1.1k
views
Averaging multiple columns
R
shell
updated 4.8 years ago by
zx8754
11k • written 4.8 years ago by
vinayjrao
▴ 250
2
votes
1
reply
6.6k
views
How to merge 2 dataframes based on common column names?
R
updated 4.9 years ago by
lakhujanivijay
5.8k • written 4.9 years ago by
vinayjrao
▴ 250
0
votes
0
replies
842
views
log2FC Difference Across Control Samples
microarray
agilent
4.9 years ago by
vinayjrao
▴ 250
2
votes
5
replies
1.4k
views
Probe Sequence Missing from Agilent Data
microarray
agilent
4.9 years ago by
vinayjrao
▴ 250
2
votes
5
replies
1.3k
views
Plotting TCGA's HM450 data
bisulfite-seq
HM450
methylation
TCGA
updated 5.3 years ago by
Kevin Blighe
87k • written 5.3 years ago by
vinayjrao
▴ 250
2
votes
6
replies
3.1k
views
Normalizing RPPA data counts from TCGA
tcga
protein expression
rppa
updated 5.3 years ago by
Kevin Blighe
87k • written 5.3 years ago by
vinayjrao
▴ 250
2
votes
6
replies
2.4k
views
Is there a code to find consensus motif
C
awk
shell
python
updated 5.7 years ago by
Carlo Yague
8.7k • written 5.7 years ago by
vinayjrao
▴ 250
2
votes
4
replies
1.5k
views
Need help in GSEA analysis and interpretation
gsea
barcode plot
rna-seq
5.8 years ago by
vinayjrao
▴ 250
4
votes
17
replies
3.2k
views
Selecting intergenic regions
grep
shell
updated 13 months ago by
Ram
43k • written 5.9 years ago by
vinayjrao
▴ 250
11
votes
7
replies
16k
views
6 follow
How to extract specific rows based on row number from a file
shell
updated 13 months ago by
Ram
43k • written 5.9 years ago by
vinayjrao
▴ 250
4
votes
10
replies
5.7k
views
PAM50 subtype classification by genefu
RNA-Seq
R
bioconductor
genefu
pam50
updated 6.0 years ago by
Matina
▴ 250 • written 6.0 years ago by
vinayjrao
▴ 250
3
votes
6
replies
8.8k
views
Formula to calculate FPKM
RNA-Seq
fpkm
updated 6.1 years ago by
Rahul Sharma
▴ 660 • written 6.1 years ago by
vinayjrao
▴ 250
0
votes
0
replies
796
views
Database to find enzyme targets
database
substrate
enzyme target
PTMs
6.1 years ago by
vinayjrao
▴ 250
7
votes
6
replies
2.6k
views
Confidence Interval in R
R
t test
confidence interval
p-value
RNA-Seq
updated 6.2 years ago by
Jean-Karim Heriche
27k • written 6.2 years ago by
vinayjrao
▴ 250
8
votes
8
replies
17k
views
grep a column based on a string
grep
awk
updated 6.2 years ago by
shenwei356
8.4k • written 6.2 years ago by
vinayjrao
▴ 250
0
votes
5
replies
1.3k
views
updating a cell in a file
shell
awk
sed
updated 6.2 years ago by
Shred
★ 1.4k • written 6.2 years ago by
vinayjrao
▴ 250
4
votes
2
replies
4.7k
views
plotting boxplots in R
R
box plots
updated 6.2 years ago by
lakhujanivijay
5.8k • written 6.2 years ago by
vinayjrao
▴ 250
4
votes
3
replies
1.7k
views
Error in writing a file from R
R
write.table
updated 6.2 years ago by
GenoMax
141k • written 6.2 years ago by
vinayjrao
▴ 250
7
votes
7
replies
2.0k
views
removing lines that don't match by grep
grep
file handling
updated 6.2 years ago by
michael.ante
★ 3.8k • written 6.2 years ago by
vinayjrao
▴ 250
5
votes
1
reply
15k
views
Setting the first row as column name in R
R
updated 23 months ago by
Ram
43k • written 6.3 years ago by
vinayjrao
▴ 250
1
vote
7
replies
1.5k
views
extracting a column by grepping particular rows
grep
awk
updated 6.3 years ago by
cpad0112
21k • written 6.3 years ago by
vinayjrao
▴ 250
1
vote
7
replies
1.3k
views
Picking out the first occurrence of a gene
grep
awk
updated 6.3 years ago by
cpad0112
21k • written 6.3 years ago by
vinayjrao
▴ 250
0
votes
2
replies
1.3k
views
Installing old versions of cummeRbund
RNA-Seq
R
cummeRbund
updated 6.7 years ago by
Biostar
20 • written 6.7 years ago by
vinayjrao
▴ 250
1
vote
9
replies
2.4k
views
No differential gene expression after tuxedo protocol
RNA-Seq
cuffdiff
updated 6.7 years ago by
Buffo
★ 2.4k • written 6.7 years ago by
vinayjrao
▴ 250
56 results • Page
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