User Jay Moore

1 vote

Pipeline to analyse small RNAseq and tRNAs?

answered Nov 19, 2019 at 7:34

1 vote

What are the standard ways to visualize protein-protein or gene-gene interactions?

answered Nov 14, 2019 at 13:57

1 vote

HVG and variation coefficient

answered Nov 8, 2019 at 16:44

1 vote

Accepted

GenomicRanges: get nearest neighbor distances for random genes using a for loop

answered Nov 8, 2019 at 11:47

1 vote

Method to detect genome doubling

answered Nov 7, 2019 at 14:27

0 votes

Common QC parameters and threshold in human WGS pipeline

answered Nov 4, 2019 at 10:21

-1 votes

tool to visualize a collection of phylogenetic trees

answered Nov 1, 2019 at 18:06

1 vote

What do these files / annotations mean?

answered Oct 31, 2019 at 7:46

3 votes

Accepted

Is there any way to align ChIP-seq reads to telomeres?

answered Oct 15, 2019 at 12:39

5 votes

Accepted

Sequencing center returns data in several files

answered Sep 30, 2019 at 9:29

3 votes

Accepted

Best way to "fish" long reads that match a query sequence

answered Sep 25, 2019 at 13:38

1 vote

Find most similar genes to a set of genes of interest in time series RNA-seq data

answered Sep 18, 2019 at 15:39

1 vote

Determining the quality of a publicly available genome assembly

answered Sep 18, 2019 at 15:33

0 votes

Find indels between two short sequences

answered Sep 16, 2019 at 21:23

1 vote

Is there a JSON-based genomic feature format?

answered Sep 13, 2019 at 11:43

1 vote

How does one construct a cladogram of intraspecies relationships?

answered Aug 21, 2019 at 14:58

1 vote

How to plot character state changes from a presence-absence matrix on to a phylogeny

answered Aug 12, 2019 at 11:30

1 vote

Appropriate tool or algorithm for sloppy alignment of degenerate bases

answered Aug 10, 2019 at 13:40

1 vote

Accepted

Correlate DEGs from DESeq2, EdgeR and Limma results

answered Aug 9, 2019 at 10:01

1 vote

How to convert a .fastq chip-seq file into a wig/bigwig track and how to extract chip-seq peaks?

answered Aug 1, 2019 at 8:54

1 vote

Hosting IGV web on a server

answered Jul 23, 2019 at 9:25

8 votes

Accepted

Find intervals that genes fall within their range

answered Jun 17, 2019 at 19:04

1 vote

Comparing two genome annotations

answered Jun 28, 2019 at 11:27

2 votes

Biological replicates on Chip-seq Transcription factor data

answered Jun 24, 2019 at 22:15

2 votes

Accepted

Getting a stretch of genomic ranges from a dataframe/granges object based on metadata column

answered Jun 14, 2019 at 14:13

0 votes

Calculating p-value for introns which are retained (or not) between 2 conditions

answered Apr 30, 2019 at 15:40

2 votes

Loading local FASTA file in igv.js

answered Apr 29, 2019 at 13:27

1 vote

Where can I find .cdf files for Affymetrix ChIP-chip data analysis?

answered Mar 5, 2019 at 13:38

4 votes

Accepted

Separation of mixed plasmid DNA sequences post whole-plasmid sequencing

answered Feb 22, 2019 at 14:36

2 votes

Accepted

How do I perform a pathway related grouping of genes?

answered Feb 21, 2019 at 13:05

Stack Exchange Network

41 Answers

Pipeline to analyse small RNAseq and tRNAs?

What are the standard ways to visualize protein-protein or gene-gene interactions?

HVG and variation coefficient

GenomicRanges: get nearest neighbor distances for random genes using a for loop

Method to detect genome doubling

Common QC parameters and threshold in human WGS pipeline

tool to visualize a collection of phylogenetic trees

What do these files / annotations mean?

Is there any way to align ChIP-seq reads to telomeres?

Sequencing center returns data in several files

Best way to "fish" long reads that match a query sequence

Find most similar genes to a set of genes of interest in time series RNA-seq data

Determining the quality of a publicly available genome assembly

Find indels between two short sequences

Is there a JSON-based genomic feature format?

How does one construct a cladogram of intraspecies relationships?

How to plot character state changes from a presence-absence matrix on to a phylogeny

Appropriate tool or algorithm for sloppy alignment of degenerate bases

Correlate DEGs from DESeq2, EdgeR and Limma results

How to convert a .fastq chip-seq file into a wig/bigwig track and how to extract chip-seq peaks?

Hosting IGV web on a server

Find intervals that genes fall within their range

Comparing two genome annotations

Biological replicates on Chip-seq Transcription factor data

Getting a stretch of genomic ranges from a dataframe/granges object based on metadata column

Calculating p-value for introns which are retained (or not) between 2 conditions

Loading local FASTA file in igv.js

Where can I find .cdf files for Affymetrix ChIP-chip data analysis?

Separation of mixed plasmid DNA sequences post whole-plasmid sequencing

How do I perform a pathway related grouping of genes?