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Hussain Ather • 920
Status: New
Handle: @Hussain Ather42178
Reputation: 920
Email: s*********@gmail.com
Joined: 16 months ago
Twitter: shussainather
Last seen: 21 months ago
Location: National Institutes of Health, Bethesda, MD

Post-baccalaureate researcher interested in algorithm design and genomics. 

Comments represent my own, not necessarily my employer's.

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Answer: A: rna-seq expression analysis among several nonmodel species (Next step?)
23 months ago
Hussain Ather • 920
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464
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Comment: A: Convert list of rs IDs from one format to another
2.5 years ago
Hussain Ather • 920
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1.2k
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Answer: A: Generating pileup from .bam file
2.5 years ago
Hussain Ather • 920
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Answer: A: Differential Expression from Quantile-Norm Data
2.5 years ago
Hussain Ather • 920
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Answer: A: Differential ChIP-Seq Analysis
2.5 years ago
Hussain Ather • 920
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793
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Comment: A: How can I convert from bed to bed12 format?
2.5 years ago
Hussain Ather • 920
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793
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Answer: A: How to do correlation analyses between RNAseq and ChIPseq library?
2.5 years ago
Hussain Ather • 920
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438
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Comment: C: Assessing differentially expressed proteins between two samples
2.5 years ago
Hussain Ather • 920
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Answer: A: Using MACS2 for peak calling
2.5 years ago
Hussain Ather • 920
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435
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Answer: A: How to analyze the expression of a single gene in microarray data?
2.5 years ago
Hussain Ather • 920
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Answer: A: [Opinion] - What alignment software do you use?
2.6 years ago
Hussain Ather • 920
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Answer: A: The relationship between DNA sequence divergence and recombination rates?
2.6 years ago
Hussain Ather • 920
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Answer: A: Question: How to generate a count matrix with featurecounts
2.6 years ago
Hussain Ather • 920
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922
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Answer: A: Is it OK doing Principal component analysis (PCA) analysis just with high varian
2.6 years ago
Hussain Ather • 920
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996
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Answer: A: Should kallisto take hours to run?
2.6 years ago
Hussain Ather • 920
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Answer: A: Is there an available tool to visualize multiple "types" of ChIP-seq peaks on a
2.6 years ago
Hussain Ather • 920
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Comment: A: Algorithms in cwl
2.6 years ago
Hussain Ather • 920
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Answer: A: Cufflinks and StringTie
2.6 years ago
Hussain Ather • 920
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431
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Answer: A: how to determine the gene involved in antibiotic resistance?
2.6 years ago
Hussain Ather • 920
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611
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Comment: A: merge table with gene ID and names
2.6 years ago
Hussain Ather • 920
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Comment: A: IGV - is there a way to extract bulk information?
2.6 years ago
Hussain Ather • 920
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3.9k
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Answer: A: Modern software for whole genome alignment visualization
2.6 years ago
Hussain Ather • 920
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Answer: A: Packages/modules for CNV, Indels, SNPs analysis
2.7 years ago
Hussain Ather • 920
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Answer: A: opensource grafical user interface for filtering millions of annotated variant
2.7 years ago
Hussain Ather • 920
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Comment: C: need data sets
2.7 years ago
Hussain Ather • 920
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501
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Answer: A: Extracting Indels from two aligned DNA sequences
2.7 years ago
Hussain Ather • 920
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Answer: A: The Most Appropriate Statistical Test
2.7 years ago
Hussain Ather • 920
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1.2k
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Answer: A: Assessing mapping quality from BAM files
2.8 years ago
Hussain Ather • 920
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507
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Answer: A: Machine Learning/Deep Learning approaches to integrate genotype and annotation i
2.8 years ago
Hussain Ather • 920
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Answer: A: Is there a database of proteins and their functional residues?
2.8 years ago
Hussain Ather • 920
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702
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Answer: A: Annotation of taxonomy information in phylogeny tree
2.8 years ago
Hussain Ather • 920
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666
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Answer: A: Quantifying mRNA level
2.8 years ago
Hussain Ather • 920
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672
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Answer: A: Downloading data from HMPDACC.
2.8 years ago
Hussain Ather • 920
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Answer: A: Differential gene expression anaylsis -Ballgown
2.8 years ago
Hussain Ather • 920
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644
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Answer: A: No peaks present in track when opening a .bedGraph file on IGV
2.8 years ago
Hussain Ather • 920
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806
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Answer: A: What shall I do with this RNA-seq data that have no replicates?
2.8 years ago
Hussain Ather • 920
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720
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Answer: A: Issue with DEXSeq installation
2.8 years ago
Hussain Ather • 920
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791
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Answer: A: rpkm and raw count
2.8 years ago
Hussain Ather • 920
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Answer: A: Is anybody know why the StarBase website (http://starbase.sysu.edu.cn/) is not a
2.8 years ago
Hussain Ather • 920
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636
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Comment: A: Bowtie alignment of multiple fastq files
2.8 years ago
Hussain Ather • 920
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Answer: A: Does STAR give the reads that were mapped at intergenic regions? How can I get t
2.8 years ago
Hussain Ather • 920
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391
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Answer: A: add same string to the certain lines in python
2.8 years ago
Hussain Ather • 920
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530
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Answer: A: What is my total number of genes in a hypergeometic distribution test?
2.8 years ago
Hussain Ather • 920
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Answer: A: How to detect insertion and deletion errors from BWA
2.8 years ago
Hussain Ather • 920
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564
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Answer: A: Patterns within groups with RNA-seq
2.8 years ago
Hussain Ather • 920
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Answer: A: how can i plot a heatmap in shiny from a user input file
2.8 years ago
Hussain Ather • 920
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820
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Answer: A: Names are not identical in mapping file and the otu file.
2.9 years ago
Hussain Ather • 920
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641
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Answer: A: Plant genes interaction pathway tool
2.9 years ago
Hussain Ather • 920
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Which is more useful - Seaborn or Matplotlib?
matplotlib seaborn python
2.9 years ago
Hussain Ather • 920 • updated 2.9 years ago
shoujun.gu • 370
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780
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Answer: A: Filtering Fasta sequences by length (only one must prevail)
2.9 years ago
Hussain Ather • 920
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Comment: C: Filtering Fasta sequences by length (only one must prevail)
2.9 years ago
Hussain Ather • 920
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2.3k
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Answer: A: Add annotation color bar to ggplot or ggvis barplot
2.9 years ago
Hussain Ather • 920
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631
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Answer: A: File processing, arranging columns
2.9 years ago
Hussain Ather • 920
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1.0k
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Comment: A: IGV custom genome/Biostarhandbook Chapter 16
2.9 years ago
Hussain Ather • 920
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Answer: A: Meaning of the Output from BBMap
2.9 years ago
Hussain Ather • 920
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603
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Answer: A: Plotting linkage equilibrium results
2.9 years ago
Hussain Ather • 920
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Answer: A: Identify trans-regulatory regions
2.9 years ago
Hussain Ather • 920
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Answer: A: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 201
2.9 years ago
Hussain Ather • 920
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Answer: A: IceLogo Plots for Python or R
2.9 years ago
Hussain Ather • 920
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1.0k
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Comment: A: Where to simulate RNA-seq data online
2.9 years ago
Hussain Ather • 920
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541
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Answer: A: How to command python to continue beyond the loop?
2.9 years ago
Hussain Ather • 920
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1.3k
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Comment: C: Average size and amount of Enhancer and Promoters ?
2.9 years ago
Hussain Ather • 920
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Answer: A: Average size and amount of Enhancer and Promoters ?
2.9 years ago
Hussain Ather • 920
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528
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Answer: A: Is there any career oriented short term online courses available after post grad
2.9 years ago
Hussain Ather • 920
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Answer: A: Search zebrafish genes with a miRNA target seed sequence
2.9 years ago
Hussain Ather • 920
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497
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Comment: C: Tools for quantitative comparison of differential tissue gene expression?
2.9 years ago
Hussain Ather • 920
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660
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Answer: A: Finding difference in read depth between two BAM files
2.9 years ago
Hussain Ather • 920
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1.1k
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Answer: A: BWA mem running extremely slow
2.9 years ago
Hussain Ather • 920
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402
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Comment: C: Problem in loading data in Heat map
2.9 years ago
Hussain Ather • 920
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Answer: A: parsing fastq files in python
2.9 years ago
Hussain Ather • 920
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News: Google announces DeepVariant
genome deep learning google News
2.9 years ago
Hussain Ather • 920 • updated 2.9 years ago
Chris Miller 20k
1
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665
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Comment: C: Multiple looping in python
2.9 years ago
Hussain Ather • 920
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Comment: C: Multiple looping in python
2.9 years ago
Hussain Ather • 920
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665
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Comment: C: Multiple looping in python
2.9 years ago
Hussain Ather • 920
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Answer: A: Multiple looping in python
2.9 years ago
Hussain Ather • 920
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Answer: A: error bar in boxplot ggplot2
2.9 years ago
Hussain Ather • 920
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495
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Answer: A: exclude gene with features from gff3 file
2.9 years ago
Hussain Ather • 920
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896
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Answer: A: If the Scalpel can be installed on MacBook Pro?
2.9 years ago
Hussain Ather • 920
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Answer: A: bedtools intersect segmentation fault
2.9 years ago
Hussain Ather • 920
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952
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Comment: C: Bedtools intersect returns 0, intersections present on IGV
2.9 years ago
Hussain Ather • 920
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Answer: A: BAM file comparison
2.9 years ago
Hussain Ather • 920
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Answer: A: RNA-seq analysis: How to output normalized counts or normalized FPKM values for
2.9 years ago
Hussain Ather • 920
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538
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Answer: A: RNA_seq Data analysis Help
2.9 years ago
Hussain Ather • 920
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996
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Answer: A: Split BAM file from more sample
2.9 years ago
Hussain Ather • 920
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2.8k
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Answer: A: high % of reads mapped to multiple loci after STAR mapping
2.9 years ago
Hussain Ather • 920
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1.2k
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Comment: C: Biopython - Can't find file
2.9 years ago
Hussain Ather • 920
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870
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Comment: C: RNASeq data RPKM
2.9 years ago
Hussain Ather • 920
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Answer: A: RNASeq data RPKM
2.9 years ago
Hussain Ather • 920
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Answer: A: Understanding SAM file format
2.9 years ago
Hussain Ather • 920
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827
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Comment: C: Loading genome on IGV
2.9 years ago
Hussain Ather • 920
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Answer: A: Loading genome on IGV
2.9 years ago
Hussain Ather • 920
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Answer: A: Hierarchical Clustering in single-channel agilent microarray experiment
2.9 years ago
Hussain Ather • 920
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Comment: A: What is the difference by using the folded and unfolded SFS in fastsimcoal?
2.9 years ago
Hussain Ather • 920
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3.7k
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Answer: A: How do I normalize for my RNA-seq data across different samples in different con
2.9 years ago
Hussain Ather • 920
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Answer: A: Comparing Protein-DNA binding species at specific time points
2.9 years ago
Hussain Ather • 920
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902
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Answer: A: meme-chip command line usage error
2.9 years ago
Hussain Ather • 920
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1
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6.8k
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Comment: C: Bioinformatics PhD Programs in the US
2.9 years ago
Hussain Ather • 920
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Comment: C: Bioinformatics PhD Programs in the US
2.9 years ago
Hussain Ather • 920
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Comment: C: Alignment in IGV: extracting specific reads.
2.9 years ago
Hussain Ather • 920
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878
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Answer: A: STAR index generation option --sjdbOverhang for paired-end ?
2.9 years ago
Hussain Ather • 920
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