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Comment: Comment: Over Representation Vs Enrichment Analysis
10 days ago by simplitia ▴ 80
1
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0
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216
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Comment: Comment: For downstream analysis from cellranger 10x scRNAseq eg. Seurat package, do you
14 days ago by simplitia ▴ 80
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0
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1.9k
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Comment: Comment: What is the best practice of scRNA workflow for multiple patients and samples us
14 days ago by simplitia ▴ 80
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2
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216
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For downstream analysis from cellranger 10x scRNAseq eg. Seurat package, do you recommend using raw or filtered matrix?
10x Seurat scRNAseq
14 days ago by simplitia ▴ 80
3
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3
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251
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Create a bed file bins from fasta?
bed fasta
updated 20 days ago by 8.8k • written 21 days ago by ▴ 80
0
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4
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332
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Biologically what does it mean when an exon has higher expression?
expression rnaseq gene
updated 8 weeks ago by 8.8k • written 8 weeks ago by ▴ 80
0
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1
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332
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Comment: Comment: Biologically what does it mean when an exon has higher expression?
8 weeks ago by simplitia ▴ 80
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0
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233
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Can RNAseq expression be correlated with differential methylated regions?
rnaseq methylation
5 months ago by simplitia ▴ 80
1
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1
reply
278
views
What are the minimum packages required to compile samtools for Debian OS?
samtools
updated 6 months ago by ★ 20k • written 6 months ago by ▴ 80
0
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0
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877
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Comment: Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
6 months ago by simplitia ▴ 80
0
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1
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877
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Comment: Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
6 months ago by simplitia ▴ 80
0
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1
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877
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Comment: Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
6 months ago by simplitia ▴ 80
0
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1
reply
877
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Comment: Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
6 months ago by simplitia ▴ 80
0
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8
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877
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Is there a way to safely remove all underscore from gene id for hg19 from genecode
rnaseq genecode
6 months ago by simplitia ▴ 80
0
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0
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252
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Is there a Grange object for swiss-prot domain? What I want is to detect what domains are overlapping with genomic coordinates.
R
6 months ago by simplitia ▴ 80
0
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1
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287
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Anyone know what the window size ( bin size) for dmrcate is?
EPIC 450K methylation
updated 6 months ago by ▴ 490 • written 6 months ago by ▴ 80
1
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0
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8.3k
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Comment: Comment: Automatic Outlier Detection for RNA-seq data
9 months ago by simplitia ▴ 80
0
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1
reply
8.3k
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Comment: Comment: Automatic Outlier Detection for RNA-seq data
9 months ago by simplitia ▴ 80
1
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0
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527
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Comment: Comment: guilt by association
11 months ago by simplitia ▴ 80
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0
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1.3k
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Comment: Comment: Inserting Variant allele frequency to VCF file
11 months ago by simplitia ▴ 80
0
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0
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322
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Strelka2 stomatic calls, where is the GT tag ?
strelka annovar variant
11 months ago by simplitia ▴ 80
0
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1
reply
436
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converting genomic version for annovar database?
annovar variant
updated 11 months ago by ▴ 570 • written 11 months ago by ▴ 80
0
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0
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646
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Comment: Comment: Is there a way to extract alignment score from STAR aligner bam files?
12 months ago by simplitia ▴ 80
7
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5
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646
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Is there a way to extract alignment score from STAR aligner bam files?
rnaseq
12 months ago by simplitia ▴ 80
0
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0
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889
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Answer: Answer: install R package
12 months ago by simplitia ▴ 80
0
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0
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22k
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Comment: Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
13 months ago by simplitia ▴ 80
0
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1
reply
725
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Comment: Comment: Extracting reads from fastq files with BBMAP?
13 months ago by simplitia ▴ 80
0
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3
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725
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Extracting reads from fastq files with BBMAP?
bbmap fastq
updated 13 months ago by 117k • written 13 months ago by ▴ 80
0
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1
reply
22k
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Comment: Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
13 months ago by simplitia ▴ 80
0
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1
reply
22k
views
Comment: Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
14 months ago by simplitia ▴ 80
1
vote
1
reply
371
views
Convert COSMIC VCF coordinates to that of ensembl format?
sequencing SNP alignment next-gen
20 months ago by simplitia ▴ 80
0
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0
replies
503
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Where can I get the GTex equivalent to rnaseqv2 Level3 RSEM_genes?
RNA-Seq tcga rsem
23 months ago by simplitia ▴ 80
0
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0
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24k
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Comment: C: How To Do Normalization Of Two Chip-Seq Data?
2.1 years ago by simplitia ▴ 80
0
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5
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2.0k
views
Calculating and confirming shRNA knockdown gene from RNA-Seq?
RNA-Seq
updated 2.1 years ago by ▴ 530 • written 4.7 years ago by ▴ 80
1
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1
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2.1k
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Comment: C: How to round the "expected counts" to integers?
2.1 years ago by simplitia ▴ 80
1
vote
3
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758
views
How reliable are the ensembl transcript isoforms?
RNA-Seq ensembl isoform
updated 2.2 years ago by ▴ 330 • written 2.2 years ago by ▴ 80
2
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1
reply
1.1k
views
GRanges: remove ranges that falls in between a larger range?
grange RNA-Seq r
updated 2.3 years ago by ▴ 40 • written 2.3 years ago by ▴ 80
0
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1
reply
6.9k
views
Comment: C: How to color nodes in Cytoscape according to expression of genes? How should the
2.4 years ago by simplitia ▴ 80
0
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1
reply
12k
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Answer: A: TMM or TPM normalized counts for visualization?
2.7 years ago by simplitia ▴ 80
1
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2
replies
1.2k
views
STAR: Is it ok to align with an index created from genecode but count features from gtf from ensembl?
RNA-Seq STAR alignment
updated 2.7 years ago by ★ 3.9k • written 2.7 years ago by ▴ 80
0
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0
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391
views
How to interpret exon reads from recount for version 2?
RNA-Seq TCGA
2.9 years ago by simplitia ▴ 80
0
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0
replies
1.9k
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Answer: A: SOAPfuse: problem in constructing database
3.0 years ago by simplitia ▴ 80
0
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0
replies
709
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Advice for gene overlap with direction between two sets.
R chisquare statistics
3.2 years ago by simplitia ▴ 80
0
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1
reply
1.0k
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Comment: C: Understanding FANTOM5 CAGE fields
3.4 years ago by simplitia ▴ 80
2
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3
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1.0k
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Understanding FANTOM5 CAGE fields
RNA-Seq transcription tss
updated 3.4 years ago by ★ 3.9k • written 3.4 years ago by ▴ 80
0
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1
reply
1.1k
views
Help convert GDC exploration url to API download?
gdc mutation portal
updated 3.4 years ago by 20 • written 3.5 years ago by ▴ 80
0
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0
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151k
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Comment: A: How to download raw sequence data from GEO/SRA
updated 3.4 years ago by 36k • written 4.4 years ago by ▴ 80
0
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1
reply
90k
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Comment: C: from .BAM to .BAI using samtools
3.5 years ago by simplitia ▴ 80
0
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0
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3.2k
views
Comment: C: How to recreate FASTQ from BAM
3.6 years ago by simplitia ▴ 80
2
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4
replies
3.2k
views
How to recreate FASTQ from BAM
RNA-Seq BAM sequencing
updated 3.6 years ago by ▴ 310 • written 3.6 years ago by ▴ 80
63 results • Page 1 of 2
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