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607
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Umbrella pathways in KEGG
KEGG R
updated 4 months ago by 3.4k • written 4 months ago by ▴ 550
0
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0
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517
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Tools for network alignement
graph network R netcom igraph
updated 19 months ago by 45k • written 19 months ago by ▴ 550
1
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1
reply
890
views
Network cross-validation
wgcna RNASeq Network CV
updated 2.3 years ago by 5.1k • written 2.3 years ago by ▴ 550
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1
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1.3k
views
Comment: Comment: Log fold change from rlog
2.9 years ago by Arindam Ghosh ▴ 550
3
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3
replies
1.3k
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Log fold change from rlog
logarithms R deseq
updated 2.9 years ago by 89k • written 2.9 years ago by ▴ 550
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0
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3.6k
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Answer: Answer: From Bismark to methylkit, which file is better to use?
4.0 years ago by Arindam Ghosh ▴ 550
0
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1
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6.5k
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Comment: Comment: Difference in Bismark output methylation call files and coverage files
4.0 years ago by Arindam Ghosh ▴ 550
1
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1
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1.4k
views
RRBS data analysis using Bismark and methylkit
RRBS methylkit Bismark WGBS
updated 4.0 years ago by ★ 3.1k • written 4.0 years ago by ▴ 550
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0
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4.7k
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Comment: Comment: Bismark rrbs data analysis
4.1 years ago by Arindam Ghosh ▴ 550
0
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1
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4.0k
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Comment: Comment: directionality of RRBS
4.1 years ago by Arindam Ghosh ▴ 550
0
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1
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5.1k
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Comment: Comment: GC content in bilsulfite converted library
4.1 years ago by Arindam Ghosh ▴ 550
1
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1
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6.1k
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Comment: Comment: Rrbs Is It Different From Bisulfite Seq
4.1 years ago by Arindam Ghosh ▴ 550
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1
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1.3k
views
Comment: Comment: Contigs and scaffold in reference genome
4.2 years ago by Arindam Ghosh ▴ 550
2
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3
replies
1.3k
views
Contigs and scaffold in reference genome
BWA Ensembl Genome Reference HiSat NCBI
updated 4.2 years ago by 153k • written 4.2 years ago by ▴ 550
0
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1
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21k
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Comment: Comment: BEDOPS gtf2bed conversion error with Ensembl GTF
4.2 years ago by Arindam Ghosh ▴ 550
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0
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6.1k
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Comment: Comment: How can I get .bed file that have unique Entrez gene id (or symbol) for deeptool
4.2 years ago by Arindam Ghosh ▴ 550
0
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0
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982
views
Read trimming in BS-Seq
Methylation BS-Seq Bismark WGBS
4.3 years ago by Arindam Ghosh ▴ 550
0
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0
replies
1.9k
views
Bismark to MethylKit
methylkit bismark bsseq
4.3 years ago by Arindam Ghosh ▴ 550
1
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1
reply
1.3k
views
Pathway network
Reactome Pathway cytoscape KEGG igraph
updated 4.4 years ago by 27k • written 4.4 years ago by ▴ 550
0
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0
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5.9k
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Comment: Comment: What is the difference between deferentially expressed genes and deferentially
4.4 years ago by Arindam Ghosh ▴ 550
0
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0
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659
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Is there a limit on the number of query in cir_query()?
R SMILES webchem
4.4 years ago by Arindam Ghosh ▴ 550
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0
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6.5k
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Comment: Comment: Multiple Hits and Unique Mapped Reads
4.5 years ago by Arindam Ghosh ▴ 550
0
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0
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6.9k
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Comment: C: Open Targets and programmatic access
4.5 years ago by Arindam Ghosh ▴ 550
0
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0
replies
2.4k
views
HiSat2 vs BowTie2 for mapping miRNA-seq reads
miRNA-Seq Hisat2 Bowtie
updated 4.8 years ago by 20 • written 5.2 years ago by ▴ 550
66
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22
replies
39k
views
7 follow
Batch correction in DESeq2
Combat DESeq2 Batch-Effect
updated 17 months ago by 45k • written 5.9 years ago by ▴ 550
0
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0
replies
3.2k
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Comment: C: miRNAs interaction networks analysis
5.1 years ago by Arindam Ghosh ▴ 550
0
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1
reply
26k
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Comment: C: htseq-counts output merge into one matrix ??
5.1 years ago by Arindam Ghosh ▴ 550
0
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1
reply
7.6k
views
Comment: C: How to find p-value of the modules in WGCNA?
5.1 years ago by Arindam Ghosh ▴ 550
0
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1
reply
7.6k
views
Comment: C: How to find p-value of the modules in WGCNA?
5.1 years ago by Arindam Ghosh ▴ 550
0
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1
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7.6k
views
Comment: C: How to find p-value of the modules in WGCNA?
5.1 years ago by Arindam Ghosh ▴ 550
0
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1
reply
11k
views
Comment: C: featureCounts for paired bam files and dealing with multimapping reads?
5.2 years ago by Arindam Ghosh ▴ 550
0
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0
replies
4.1k
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Comment: C: Full GTF file vs Subset GTF file
5.2 years ago by Arindam Ghosh ▴ 550
0
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1
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4.1k
views
Comment: C: Full GTF file vs Subset GTF file
5.2 years ago by Arindam Ghosh ▴ 550
0
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0
replies
4.1k
views
Comment: C: Full GTF file vs Subset GTF file
5.2 years ago by Arindam Ghosh ▴ 550
0
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1
reply
4.1k
views
Comment: C: Full GTF file vs Subset GTF file
5.2 years ago by Arindam Ghosh ▴ 550
2
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8
replies
4.1k
views
Full GTF file vs Subset GTF file
featurecounts RNA-Seq miRNA-seq Ensembl
updated 5.2 years ago by ▴ 540 • written 5.2 years ago by ▴ 550
1
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0
replies
1.7k
views
Answer: A: DESeq2 for Differential gene expression
5.2 years ago by Arindam Ghosh ▴ 550
0
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0
replies
3.9k
views
Comment: C: LncRNA Differential Expression and Analysis of lncRNA and mRNA co-expression.
5.2 years ago by Arindam Ghosh ▴ 550
0
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0
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6.0k
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Answer: A: FastQC & trimming - RNA seq data
5.2 years ago by Arindam Ghosh ▴ 550
0
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0
replies
7.5k
views
Comment: C: GO and KEGG from DESeq2 counts
5.2 years ago by Arindam Ghosh ▴ 550
0
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1
reply
2.6k
views
Comment: C: Error in reading expression matrix
5.2 years ago by Arindam Ghosh ▴ 550
0
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2
replies
2.1k
views
Comment: C: hisat2 mm10 low transcriptome mapping rate and low uniquely mapping rate
5.2 years ago by Arindam Ghosh ▴ 550
0
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1
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2.1k
views
Answer: A: hisat2 mm10 low transcriptome mapping rate and low uniquely mapping rate
5.2 years ago by Arindam Ghosh ▴ 550
0
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1
reply
12k
views
Comment: C: GTF/GFF for non-coding RNA
5.2 years ago by Arindam Ghosh ▴ 550
9
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1
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39k
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Comment: C: Batch correction in DESeq2
5.2 years ago by Arindam Ghosh ▴ 550
0
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0
replies
4.0k
views
Comment: C: miRNA-seq Trimmomatic adapter file
5.2 years ago by Arindam Ghosh ▴ 550
0
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0
replies
5.8k
views
Comment: C: microRNA- sequencing analysis
5.2 years ago by Arindam Ghosh ▴ 550
0
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1
reply
10k
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Comment: C: miRNA differential expression
5.2 years ago by Arindam Ghosh ▴ 550
0
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1
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10k
views
Comment: C: miRNA differential expression
5.2 years ago by Arindam Ghosh ▴ 550
0
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0
replies
1.8k
views
Comment: C: Annotation for miRNA-seq data analysis
5.2 years ago by Arindam Ghosh ▴ 550
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