Skip to main content
James Hawley's user avatar
James Hawley's user avatar
James Hawley's user avatar
James Hawley
  • Member for 7 years
  • Last seen more than a week ago
0 votes

Loop and TAD calling from HiC reads using HOMER

2 votes
Accepted

snakemake restricting resources for specific rule

1 vote

I am trying to find correlation between two ChIP-seq datasets but the Pearson and Spearman test results do not correspond with the peak overlap

5 votes

How to differentiate DNA fastq and RNA fastq files?

2 votes
Accepted

Get a single number representing the contact probability between a pair of genomic loci using HiC data

1 vote

How to visualize genome track of gene in specific cell-lines?

1 vote

Is loss/gain of function reflected in RNA-seq transcript counts?

2 votes

Methylation data: beta values are normally distributed

4 votes

How to identify which isoforms of a gene are actually expressed in my data?

2 votes

beginner RNA-seq Replicate papers

2 votes
Accepted

Different results of spearman correlation between TPM and FPKM

1 vote
Accepted

Grouping x-axis in scatter plot

1 vote
Accepted

Normalization methods to combine scRNA-seq experiments with different sequencing depths

3 votes
Accepted

ATAC peak anatations

1 vote

what are the nodes and edges values in gene regulatory networks?

2 votes
Accepted

How to split FASTQ reads without re-running `fastq-dump`?

1 vote

Differential gene expression analysis of time series with replicates

4 votes

Doubt about using TPM for statistics

2 votes

Why are TPMs per 10k or 100k in many scRNA-seq studies?

1 vote

Recommended coverage depth for ChIP Seq (H3K9me3 )

2 votes
Accepted

Advantages of paired-end sequencing compared to single end

2 votes

How does picard's MarkDuplicate handle unmapped reads?

1 vote

How to subset genes and its nested features from a GFF file using a gene list

1 vote

Question: Bismark methylation for non-uniquely mapping BS-seq reads

0 votes

differential analysis of chip-seq data

1 vote
Accepted

Clarification about how mapping to a reference genome works in RNA seq

0 votes

Pre-filtering genes for Principal Component Analysis

1 vote

How to make Venn diagram for the Macs peak calling output of two data sets?

1 vote
Accepted

How to get the intersection of peaks after peak calling using MACS2?

0 votes

Q: What analyses can I perform with a completely phased genome assembly?