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0
votes
0
replies
177
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
8 days ago by
simplitia
▴ 130
0
votes
2
replies
845
views
scRNAseq: thoughts on merging datasets generating from different version of 10x cellranger?
scRNAseq
Harmony
10x
Seurat
updated 9 months ago by
Rob
6.5k • written 9 months ago by
simplitia
▴ 130
0
votes
0
replies
821
views
Integration with Harmony using seurat object + SCTransform
SCTransform
seurat
scRNAseq
17 months ago by
simplitia
▴ 130
0
votes
0
replies
865
views
Comment:
Comment: How to tell if GEO SRA is paired or single?
18 months ago by
simplitia
▴ 130
3
votes
4
replies
865
views
How to tell if GEO SRA is paired or single?
rnaseq
geo
18 months ago by
simplitia
▴ 130
0
votes
0
replies
865
views
Comment:
Comment: How to tell if GEO SRA is paired or single?
18 months ago by
simplitia
▴ 130
1
vote
0
replies
837
views
Comment:
Comment: How many IGH genes are there? Confused about nomenclature.
18 months ago by
simplitia
▴ 130
1
vote
1
reply
837
views
Comment:
Comment: How many IGH genes are there? Confused about nomenclature.
18 months ago by
simplitia
▴ 130
1
vote
1
reply
837
views
Comment:
Comment: How many IGH genes are there? Confused about nomenclature.
18 months ago by
simplitia
▴ 130
8
votes
6
replies
837
views
How many IGH genes are there? Confused about nomenclature.
rnaseq
genecode
18 months ago by
simplitia
▴ 130
0
votes
1
reply
2.2k
views
Comment:
Comment: What are the units for the sctransform SCT scale.data slots?
21 months ago by
simplitia
▴ 130
0
votes
1
reply
2.2k
views
Comment:
Comment: What are the units for the sctransform SCT scale.data slots?
21 months ago by
simplitia
▴ 130
0
votes
5
replies
2.2k
views
What are the units for the sctransform SCT scale.data slots?
10x
Seurat
scRNAseq
updated 21 months ago by
rpolicastro
13k • written 21 months ago by
simplitia
▴ 130
0
votes
0
replies
28k
views
Comment:
Comment: Over Representation Vs Enrichment Analysis
22 months ago by
simplitia
▴ 130
1
vote
0
replies
779
views
Comment:
Comment: For downstream analysis from cellranger 10x scRNAseq eg. Seurat package, do you
22 months ago by
simplitia
▴ 130
0
votes
0
replies
3.7k
views
Comment:
Comment: What is the best practice of scRNA workflow for multiple patients and samples us
22 months ago by
simplitia
▴ 130
1
vote
2
replies
779
views
For downstream analysis from cellranger 10x scRNAseq eg. Seurat package, do you recommend using raw or filtered matrix?
10x
Seurat
scRNAseq
22 months ago by
simplitia
▴ 130
4
votes
3
replies
931
views
Create a bed file bins from fasta?
bed
fasta
updated 23 months ago by
rpolicastro
13k • written 23 months ago by
simplitia
▴ 130
0
votes
4
replies
804
views
Biologically what does it mean when an exon has higher expression?
expression
rnaseq
gene
updated 24 months ago by
rpolicastro
13k • written 2.0 years ago by
simplitia
▴ 130
0
votes
1
reply
804
views
Comment:
Comment: Biologically what does it mean when an exon has higher expression?
2.0 years ago by
simplitia
▴ 130
0
votes
0
replies
447
views
Can RNAseq expression be correlated with differential methylated regions?
rnaseq
methylation
2.3 years ago by
simplitia
▴ 130
1
vote
1
reply
544
views
What are the minimum packages required to compile samtools for Debian OS?
samtools
updated 2.4 years ago by
Mensur Dlakic
★ 27k • written 2.4 years ago by
simplitia
▴ 130
0
votes
0
replies
1.7k
views
Comment:
Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
2.4 years ago by
simplitia
▴ 130
0
votes
1
reply
1.7k
views
Comment:
Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
2.4 years ago by
simplitia
▴ 130
0
votes
1
reply
1.7k
views
Comment:
Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
2.4 years ago by
simplitia
▴ 130
0
votes
1
reply
1.7k
views
Comment:
Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
2.4 years ago by
simplitia
▴ 130
0
votes
8
replies
1.7k
views
Is there a way to safely remove all underscore from gene id for hg19 from genecode
rnaseq
genecode
2.4 years ago by
simplitia
▴ 130
0
votes
0
replies
485
views
Is there a Grange object for swiss-prot domain? What I want is to detect what domains are overlapping with genomic coordinates.
R
2.4 years ago by
simplitia
▴ 130
0
votes
1
reply
651
views
Anyone know what the window size ( bin size) for dmrcate is?
EPIC
450K
methylation
updated 2.4 years ago by
Basti
★ 2.0k • written 2.4 years ago by
simplitia
▴ 130
1
vote
0
replies
12k
views
Comment:
Comment: Automatic Outlier Detection for RNA-seq data
2.6 years ago by
simplitia
▴ 130
0
votes
1
reply
12k
views
Comment:
Comment: Automatic Outlier Detection for RNA-seq data
2.6 years ago by
simplitia
▴ 130
1
vote
0
replies
986
views
Comment:
Comment: guilt by association
2.8 years ago by
simplitia
▴ 130
1
vote
0
replies
3.3k
views
Comment:
Comment: Inserting Variant allele frequency to VCF file
2.8 years ago by
simplitia
▴ 130
0
votes
0
replies
638
views
Strelka2 stomatic calls, where is the GT tag ?
strelka
annovar
variant
2.8 years ago by
simplitia
▴ 130
0
votes
1
reply
794
views
converting genomic version for annovar database?
annovar
variant
updated 2.8 years ago by
Jianyu
▴ 580 • written 2.8 years ago by
simplitia
▴ 130
0
votes
0
replies
1.6k
views
Comment:
Comment: Is there a way to extract alignment score from STAR aligner bam files?
2.9 years ago by
simplitia
▴ 130
7
votes
5
replies
1.6k
views
Is there a way to extract alignment score from STAR aligner bam files?
rnaseq
2.9 years ago by
simplitia
▴ 130
0
votes
0
replies
2.2k
views
Answer:
Answer: install R package
2.9 years ago by
simplitia
▴ 130
0
votes
0
replies
32k
views
Comment:
Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
3.0 years ago by
simplitia
▴ 130
0
votes
1
reply
1.3k
views
Comment:
Comment: Extracting reads from fastq files with BBMAP?
3.0 years ago by
simplitia
▴ 130
0
votes
3
replies
1.3k
views
Extracting reads from fastq files with BBMAP?
bbmap
fastq
updated 3.0 years ago by
GenoMax
142k • written 3.0 years ago by
simplitia
▴ 130
0
votes
1
reply
32k
views
Comment:
Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
3.0 years ago by
simplitia
▴ 130
0
votes
1
reply
32k
views
Comment:
Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
3.0 years ago by
simplitia
▴ 130
1
vote
1
reply
746
views
Convert COSMIC VCF coordinates to that of ensembl format?
sequencing
SNP
alignment
next-gen
3.5 years ago by
simplitia
▴ 130
0
votes
0
replies
752
views
Where can I get the GTex equivalent to rnaseqv2 Level3 RSEM_genes?
RNA-Seq
tcga
rsem
3.8 years ago by
simplitia
▴ 130
0
votes
0
replies
27k
views
Comment:
C: How To Do Normalization Of Two Chip-Seq Data?
3.9 years ago by
simplitia
▴ 130
0
votes
5
replies
2.5k
views
Calculating and confirming shRNA knockdown gene from RNA-Seq?
RNA-Seq
updated 4.0 years ago by
rohitsatyam102
▴ 850 • written 6.5 years ago by
simplitia
▴ 130
1
vote
1
reply
3.9k
views
Comment:
C: How to round the "expected counts" to integers?
4.0 years ago by
simplitia
▴ 130
1
vote
3
replies
1.3k
views
How reliable are the ensembl transcript isoforms?
RNA-Seq
ensembl
isoform
updated 4.1 years ago by
Astrid_Ensembl
▴ 330 • written 4.1 years ago by
simplitia
▴ 130
2
votes
1
reply
1.6k
views
GRanges: remove ranges that falls in between a larger range?
grange
RNA-Seq
r
updated 4.2 years ago by
Strand NGS
▴ 40 • written 4.2 years ago by
simplitia
▴ 130
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