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292
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Tools for network alignement
graph network R netcom igraph
updated 10 months ago by 44k • written 10 months ago by ▴ 530
1
vote
1
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625
views
Network cross-validation
wgcna RNASeq Network CV
updated 18 months ago by 4.6k • written 18 months ago by ▴ 530
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1
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971
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Comment: Comment: Log fold change from rlog
2.1 years ago by Arindam Ghosh ▴ 530
3
votes
3
replies
971
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Log fold change from rlog
logarithms R deseq
updated 2.1 years ago by 85k • written 2.1 years ago by ▴ 530
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0
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2.8k
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Answer: Answer: From Bismark to methylkit, which file is better to use?
3.2 years ago by Arindam Ghosh ▴ 530
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1
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4.9k
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Comment: Comment: Difference in Bismark output methylation call files and coverage files
3.2 years ago by Arindam Ghosh ▴ 530
1
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1
reply
1.1k
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RRBS data analysis using Bismark and methylkit
RRBS methylkit Bismark WGBS
updated 3.2 years ago by ★ 3.0k • written 3.2 years ago by ▴ 530
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0
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3.9k
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Comment: Comment: Bismark rrbs data analysis
3.3 years ago by Arindam Ghosh ▴ 530
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1
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3.1k
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Comment: Comment: directionality of RRBS
3.3 years ago by Arindam Ghosh ▴ 530
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1
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4.5k
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Comment: Comment: GC content in bilsulfite converted library
3.3 years ago by Arindam Ghosh ▴ 530
1
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1
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5.4k
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Comment: Comment: Rrbs Is It Different From Bisulfite Seq
3.3 years ago by Arindam Ghosh ▴ 530
0
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1
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968
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Comment: Comment: Contigs and scaffold in reference genome
3.4 years ago by Arindam Ghosh ▴ 530
2
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3
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968
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Contigs and scaffold in reference genome
BWA Ensembl Genome Reference HiSat NCBI
updated 3.4 years ago by 147k • written 3.4 years ago by ▴ 530
0
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1
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19k
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Comment: Comment: BEDOPS gtf2bed conversion error with Ensembl GTF
3.4 years ago by Arindam Ghosh ▴ 530
0
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0
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5.4k
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Comment: Comment: How can I get .bed file that have unique Entrez gene id (or symbol) for deeptool
3.4 years ago by Arindam Ghosh ▴ 530
0
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0
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794
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Read trimming in BS-Seq
Methylation BS-Seq Bismark WGBS
3.5 years ago by Arindam Ghosh ▴ 530
0
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0
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1.7k
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Bismark to MethylKit
methylkit bismark bsseq
3.5 years ago by Arindam Ghosh ▴ 530
1
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1
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1.1k
views
Pathway network
Reactome Pathway cytoscape KEGG igraph
updated 3.6 years ago by 27k • written 3.6 years ago by ▴ 530
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0
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4.4k
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Comment: Comment: What is the difference between deferentially expressed genes and deferentially
3.6 years ago by Arindam Ghosh ▴ 530
0
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0
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518
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Is there a limit on the number of query in cir_query()?
R SMILES webchem
3.6 years ago by Arindam Ghosh ▴ 530
0
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0
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5.8k
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Comment: Comment: Multiple Hits and Unique Mapped Reads
3.7 years ago by Arindam Ghosh ▴ 530
0
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0
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5.9k
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Comment: C: Open Targets and programmatic access
3.7 years ago by Arindam Ghosh ▴ 530
0
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0
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2.2k
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HiSat2 vs BowTie2 for mapping miRNA-seq reads
miRNA-Seq Hisat2 Bowtie
updated 4.0 years ago by 20 • written 4.4 years ago by ▴ 530
60
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22
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33k
views
7 follow
Batch correction in DESeq2
Combat DESeq2 Batch-Effect
updated 7 months ago by 44k • written 5.1 years ago by ▴ 530
0
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0
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2.8k
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Comment: C: miRNAs interaction networks analysis
4.3 years ago by Arindam Ghosh ▴ 530
0
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1
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24k
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Comment: C: htseq-counts output merge into one matrix ??
4.3 years ago by Arindam Ghosh ▴ 530
0
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1
reply
6.4k
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Comment: C: How to find p-value of the modules in WGCNA?
4.3 years ago by Arindam Ghosh ▴ 530
0
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1
reply
6.4k
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Comment: C: How to find p-value of the modules in WGCNA?
4.3 years ago by Arindam Ghosh ▴ 530
0
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1
reply
6.4k
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Comment: C: How to find p-value of the modules in WGCNA?
4.3 years ago by Arindam Ghosh ▴ 530
0
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1
reply
11k
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Comment: C: featureCounts for paired bam files and dealing with multimapping reads?
4.4 years ago by Arindam Ghosh ▴ 530
0
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0
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3.1k
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Comment: C: Full GTF file vs Subset GTF file
4.4 years ago by Arindam Ghosh ▴ 530
0
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1
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3.1k
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Comment: C: Full GTF file vs Subset GTF file
4.4 years ago by Arindam Ghosh ▴ 530
0
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0
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3.1k
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Comment: C: Full GTF file vs Subset GTF file
4.4 years ago by Arindam Ghosh ▴ 530
0
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1
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3.1k
views
Comment: C: Full GTF file vs Subset GTF file
4.4 years ago by Arindam Ghosh ▴ 530
2
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8
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3.1k
views
Full GTF file vs Subset GTF file
featurecounts RNA-Seq miRNA-seq Ensembl
updated 4.4 years ago by ▴ 540 • written 4.4 years ago by ▴ 530
1
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0
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1.3k
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Answer: A: DESeq2 for Differential gene expression
4.4 years ago by Arindam Ghosh ▴ 530
0
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0
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3.1k
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Comment: C: LncRNA Differential Expression and Analysis of lncRNA and mRNA co-expression.
4.4 years ago by Arindam Ghosh ▴ 530
0
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0
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4.5k
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Answer: A: FastQC & trimming - RNA seq data
4.4 years ago by Arindam Ghosh ▴ 530
0
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0
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6.5k
views
Comment: C: GO and KEGG from DESeq2 counts
4.4 years ago by Arindam Ghosh ▴ 530
0
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1
reply
2.1k
views
Comment: C: Error in reading expression matrix
4.4 years ago by Arindam Ghosh ▴ 530
0
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2
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1.7k
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Comment: C: hisat2 mm10 low transcriptome mapping rate and low uniquely mapping rate
4.4 years ago by Arindam Ghosh ▴ 530
0
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1
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1.7k
views
Answer: A: hisat2 mm10 low transcriptome mapping rate and low uniquely mapping rate
4.4 years ago by Arindam Ghosh ▴ 530
0
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1
reply
11k
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Comment: C: GTF/GFF for non-coding RNA
4.4 years ago by Arindam Ghosh ▴ 530
7
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1
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33k
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Comment: C: Batch correction in DESeq2
4.4 years ago by Arindam Ghosh ▴ 530
0
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0
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3.5k
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Comment: C: miRNA-seq Trimmomatic adapter file
4.4 years ago by Arindam Ghosh ▴ 530
0
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0
replies
5.1k
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Comment: C: microRNA- sequencing analysis
4.4 years ago by Arindam Ghosh ▴ 530
0
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1
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8.4k
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Comment: C: miRNA differential expression
4.4 years ago by Arindam Ghosh ▴ 530
0
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1
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8.4k
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Comment: C: miRNA differential expression
4.4 years ago by Arindam Ghosh ▴ 530
0
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0
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1.4k
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Comment: C: Annotation for miRNA-seq data analysis
4.4 years ago by Arindam Ghosh ▴ 530
2
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2
replies
1.4k
views
Annotation for miRNA-seq data analysis
mirna hisat ensembl RNA-Seq Assembly
updated 4.4 years ago by ▴ 330 • written 4.4 years ago by ▴ 530
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