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1
vote
2
replies
345
views
Nextflow crash on AWS Batch with transition error
BWA Nextflow AWS
updated 8 weeks ago by ★ 2.1k • written 8 weeks ago by ▴ 180
3
votes
4
replies
445
views
Transcript Based Annotation of Variants Using Annovar
Annovar SNV Transcript Variant
updated 3 months ago by ★ 2.4k • written 3 months ago by ▴ 180
2
votes
2
replies
611
views
4 Fastq files for a single run generated by 10X
scRNA-Seq Fastq SRA 10X
5 months ago by hkarakurt ▴ 180
0
votes
2
replies
442
views
Finding the Sequence of a Protein with Variant
WES Variant-Annotation WGS
updated 9 months ago by 43k • written 9 months ago by ▴ 180
4
votes
6
replies
1.4k
views
Using Specific Regions of Genome as Reference for Alignment Using STAR
RNA-Seq Alignment STAR
updated 18 months ago by ★ 2.4k • written 18 months ago by ▴ 180
2
votes
2
replies
953
views
Weighted gene regulatory networks
regulatory ChIP-Seq network
updated 18 months ago by ▴ 470 • written 3.9 years ago by ▴ 180
2
votes
1
reply
489
views
A method to find if a variant is Genomic or an RNA-Editing variant
Editing RNA-Seq WES RNA Variant
updated 21 months ago by 19k • written 21 months ago by ▴ 180
0
votes
0
replies
653
views
Inserting Junctions Into Genome after Indexing with STAR
splicing alternative Junctions STAR RNA-Seq
23 months ago by hkarakurt ▴ 180
4
votes
8
replies
1.7k
views
Using DESeq2 as one sample vs. population
expression differential test DESeq2 RNA-Seq one-sample
23 months ago by hkarakurt ▴ 180
5
votes
2
replies
651
views
Formula for Differential Expression Analysis of 2 conditions and 2 cell types
Differential edgeR Expression Formula RNA-Seq
2.1 years ago by hkarakurt ▴ 180
0
votes
0
replies
429
views
Prediction Tool for Pathogenicity of Alternatively Spliced Proteins
protein mRNA RNA-Seq splicing
2.3 years ago by hkarakurt ▴ 180
8
votes
5
replies
2.4k
views
Oxford Nanopore Variant Calling Pipeline Calls Very Few of Variants of NA12878
Variant Calling SNP MinION ONT
2.5 years ago by hkarakurt ▴ 180
2
votes
1
reply
3.1k
views
MinION Data Examples (FAST5) Database
ONT FAST5 MinION DNA
updated 2.7 years ago by 142k • written 2.7 years ago by ▴ 180
3
votes
1
reply
2.6k
views
Normalization and Batch Effect of bulk RNA-Seq
batch RNA-Seq correction normalization
updated 2.8 years ago by 14k • written 2.8 years ago by ▴ 180
0
votes
1
reply
915
views
Multiple Transctipr ID (NM ) from MyVariantInfo
snp transcript dna-seq
updated 3.1 years ago by ▴ 660 • written 3.1 years ago by ▴ 180
1
vote
1
reply
671
views
Genomic Variant calling from RNA-Seq Data
RNA-Seq SNP Genomic Variant
updated 3.2 years ago by 87k • written 3.2 years ago by ▴ 180
30
votes
15
replies
21k
views
8 follow
Using Seurat 3 Data for Pseudotime Analysis in Monocle 3
RNA-Seq R Seurat Monocle Pseudotime
updated 3.3 years ago by ▴ 120 • written 4.9 years ago by ▴ 180
0
votes
3
replies
998
views
Optimal Number of SNPs in NA12878 WES Data
WES GATK SNP
3.4 years ago by hkarakurt ▴ 180
4
votes
3
replies
1.8k
views
Calculating GC content around a specific genomic location
WGS WES GC genome SNP
updated 3.4 years ago by 3.9k • written 3.4 years ago by ▴ 180
0
votes
0
replies
738
views
Creating a stable batch-corrected scRNA-Seq data with multiple datasets and multiple integrations
RNA-Seq scRNA-Seq batch-effect
updated 16 days ago by 43k • written 3.4 years ago by ▴ 180
2
votes
1
reply
1.1k
views
Trimmomatic trims most of the reverse strand
fastq trim trimmomatic bwa
updated 3.6 years ago by 142k • written 3.6 years ago by ▴ 180
3
votes
3
replies
1.0k
views
SNPs on a single transcript of a gene with multiple transcripts
WGS WES SNP Gene
updated 3.7 years ago by ★ 1.9k • written 3.7 years ago by ▴ 180
4
votes
5
replies
1.1k
views
Network Analysis of Each Cluster of Protein Interaction Network
R Python Network PPI
updated 3.8 years ago by ▴ 520 • written 3.8 years ago by ▴ 180
1
vote
2
replies
2.8k
views
Differential Expression Analysis of Two Groups Time Series Data with Limma
limma microarray differential expression RNA-Seq
4.6 years ago by hkarakurt ▴ 180
3
votes
8
replies
4.1k
views
Using FPKM and TPM values for batch correction for Single Cell RNA-Seq
fpkm scRNA-seq RNA-Seq tpm batch-effect
updated 16 days ago by 43k • written 4.6 years ago by ▴ 180
2
votes
1
reply
1.6k
views
Automatic Coloring for Each Node According to Names in Cytoscape
cytoscape network intercation
updated 4.8 years ago by ▴ 620 • written 4.8 years ago by ▴ 180
1
vote
5
replies
2.1k
views
Dunn Index for Clusters from scRNA-Seq
scRNA-Seq clustering dunn index scater scran
5.2 years ago by hkarakurt ▴ 180
5
votes
7
replies
3.3k
views
Differential Expression Analysis between conditions of single cell RNA-Seq
scRNA-Seq RNA-Seq differential expression analysis
5.2 years ago by hkarakurt ▴ 180
14
votes
1
reply
9.7k
views
Mitochondrial Gene percentage threshold in single cell RNA-Seq
RNA-Seq scRNA-Seq mitochondrial genes
5.2 years ago by hkarakurt ▴ 180
1
vote
3
replies
1.4k
views
Enrichment Analysis with only GeneSymbols
RNA-Seq enrichment R scRNA-Seq
updated 5.2 years ago by ★ 1.9k • written 5.2 years ago by ▴ 180
2
votes
4
replies
2.4k
views
Silhouette Plots for Clustering Quality (Multiple Algorithm)
R Clustering RNA-Seq scRNA-Seq
5.2 years ago by hkarakurt ▴ 180
0
votes
1
reply
1.3k
views
newSCESet and SingleCellExperiment basic differences and TMM Normalization
RNA-Seq single-cell R
5.6 years ago by hkarakurt ▴ 180
0
votes
2
replies
1.1k
views
Enrichment Tool for Mouse miRNAs
miRNA enrichment GO Analysis
5.8 years ago by hkarakurt ▴ 180
0
votes
1
reply
1.4k
views
Annotation File for Enchancer Regions in Ensembl mm10 genome
ChIP-Seq enhancer
5.8 years ago by hkarakurt ▴ 180
5
votes
2
replies
5.3k
views
Hisat2 or Bowtie2 for ChIP-Seq Data?
ChIP-Seq sequencing alignment
updated 5.9 years ago by 7.5k • written 5.9 years ago by ▴ 180
7
votes
7
replies
4.4k
views
Genes with promoter and enhancer regions as GTF
ChIP-Seq featurecounts gtf promoter genes
updated 7 months ago by • 0 • written 5.9 years ago by ▴ 180
4
votes
5
replies
4.5k
views
Differential ChIP-Seq Analysis
ChIP-Seq R next-gen alignment
updated 6.0 years ago by 13k • written 6.0 years ago by ▴ 180
1
vote
5
replies
3.0k
views
How to extrach gene names and peaks from BedGraph or BigWig files
ChIP-Seq bedgraph bigwig peak
updated 6.0 years ago by 104k • written 6.0 years ago by ▴ 180
0
votes
4
replies
2.1k
views
Where to download Protein-Protein Interaction Network with Cost values (Or Calculate)?
String PPI Network
6.1 years ago by hkarakurt ▴ 180
1
vote
2
replies
3.1k
views
Differential Coexpression Analysis
coexpression microarray RNA-Seq network
6.2 years ago by hkarakurt ▴ 180
0
votes
4
replies
2.1k
views
Deseq2 results have too many genes
Deseq2 RNA-Seq Differential Expression
updated 6.2 years ago by ▴ 340 • written 6.2 years ago by ▴ 180
2
votes
1
reply
1.5k
views
Example data to verify of RNA-Seq Analysis pipeline
hisat2 RNA-Seq pipeline
updated 13 months ago by 43k • written 6.3 years ago by ▴ 180
2
votes
1
reply
2.0k
views
Cufflinks gives only CUFF names with a gtf.
cufflinks RNA-Seq hisat2
updated 6.3 years ago by ★ 3.6k • written 6.3 years ago by ▴ 180
0
votes
1
reply
1.2k
views
Particle swarm or Ant Colony optimization of genome-scale metabolic model in Matlab
Matlab Optimization Metabolic Model
6.3 years ago by hkarakurt ▴ 180
0
votes
2
replies
1.4k
views
Significantly changed genes increase after Benjamini Hochberg correction
microarray matlab ttest fdr
6.5 years ago by hkarakurt ▴ 180
1
vote
1
reply
2.5k
views
Expression data extraction error. Logical result as expression matrix
geoquery bioconductor gse
updated 6.5 years ago by 26k • written 7.0 years ago by ▴ 180
3
votes
6
replies
11k
views
Retrieving data from NCBI GEO and RNA-Seq Data Analysis
RNA-Seq R GEO Normalization Count
updated 7 months ago by ▴ 310 • written 6.7 years ago by ▴ 180
3
votes
2
replies
4.8k
views
Tool for predicting transcription factors from a gene list
transcription-factors gene
updated 11 months ago by 43k • written 7.0 years ago by ▴ 180
1
vote
1
reply
5.5k
views
How to extract expression data from RAW data.
raw expression
updated 7.0 years ago by 35k • written 7.0 years ago by ▴ 180
1
vote
5
replies
3.5k
views
Expression data preprocess and normalization
RNA-Seq Bioconductor R GEO GSE
7.0 years ago by hkarakurt ▴ 180
50 results • Page 1 of 1
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