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Bioinformatics

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 Student
First question with score of 1 or more.
Awarded 2440 times.
STACKS process_radtags for demultiplexing RAD-seq data returning 57.5% "barcode not found" drops, retaining only 41.2% of reads
Awarded 14 hours ago
GRaNIE package: the output contains the wrong rat genome assembly
Awarded 2 days ago
Anomalies while docking and visualising using Python on Colab
Awarded 2 days ago
Combining SCTransform, FindIntegrationAnchors, and Harmony
Awarded Apr 30 at 11:07
Installation of biogrid2 plugin in cytoscape
Awarded Apr 28 at 12:17
Construction of 1000 genome phase 3 reference panel
Awarded Apr 28 at 9:53
Finding matched RNA-seq and Ribo-seq datasets for Nicotiana benthamiana under the same condition
Awarded Apr 26 at 17:20
Unable to install cytoscape on the new version of sequoia (15.4.1)
Awarded Apr 25 at 10:48
Will Cytoscape allow me to draw a network piece by piece and test claimed interactions?
Awarded Apr 22 at 10:32
What is the difference between JASPAR IDs MA0668.3 and MA1993.2 for Neurod2?
Awarded Apr 19 at 17:16
Automated Molecular Docking Script for Library of Receptor Proteins and Singular Ligand
Awarded Apr 13 at 20:57
How to subset a large BAM file using BED file?
Awarded Apr 10 at 11:00
Mutect2 analysis mode
Awarded Apr 9 at 10:09
BEAST Low Posterior ESS and Posterior Support Values for MCC nodes
Awarded Apr 9 at 1:18
Getting fragments inside window using pysam
Awarded Apr 8 at 12:16
PSIMI 25 style has disappeared from Style menu in Cytoscape [Cytoscape]
Awarded Apr 8 at 10:28
How to match output alleles of modkit and sniffles2 outputs in the wf human variation pipeline?
Awarded Apr 7 at 20:10
Sequence-Based Ligand Binding Site Prediction Tools (Alternative to PrankWeb with PDB Input)
Awarded Apr 4 at 22:37
Unexpected sequences extracted from BLAST database
Awarded Apr 2 at 17:46
How to efficiently rank the genes in a transcriptome dataset by signal2noise ratio?
Awarded Mar 28 at 16:46
Fastq mapping to different genomes in Geneious
Awarded Mar 28 at 2:17
How can I group mitochondrial heteroplasmy into bins based on age
Awarded Mar 24 at 21:57
How can I visualize read depth from sequencing data?
Awarded Mar 21 at 19:51
Hard Filtering Differences between WES and WGS
Awarded Mar 21 at 2:30
How and why do alignment algorithms work?
Awarded Mar 20 at 17:17
Reference genome masking reason for particular position
Awarded Mar 18 at 10:53
How can I fix an igraph produced by Fella package?
Awarded Mar 17 at 20:19
clusterMaker2 installation on cytoscape 3.10.3: functionality not enabled
Awarded Mar 16 at 4:25
affy::rma results doesn't match with ncbi website
Awarded Mar 15 at 15:53
add legend of clusters after MCL cluster network analysis
Awarded Mar 6 at 16:28
How can obtain a significant expressed genes list when we have only two sample? (one sample per condition)
Awarded Mar 5 at 3:08
Precise Mathematical Expression for Replication Fork Numbers in the Cooper-Helmstetter Model of E. coli
Awarded Mar 3 at 22:00
Problem with gaps and coverage in haploid assembly
Awarded Mar 1 at 14:05
Small pVCF file along with some phenotype information for RVAS tool testing
Awarded Mar 1 at 0:49
How to use extractfeat?
Awarded Feb 26 at 14:20
What should be the best strategy to define grid box in blind docking?
Awarded Feb 25 at 10:35
Variant missing in WES Analysis
Awarded Feb 22 at 18:27
How is basecaller Phred score quality related to the signal strengh strength (SNR) of a Nanopore sequencer?
Awarded Feb 22 at 12:40
Is PRIMER_MAX_SELF_ANY_TH dynamically adjusted by PRIMER_MIN_TM in primer3?
Awarded Feb 21 at 9:45
Do PCR Duplicates appear more often at the beginning of Illumina sequencing?
Awarded Feb 20 at 18:32
Why does the predicted structure shift in alphafold multimers?
Awarded Feb 18 at 12:56
How to find length of barcode in a FASTQ file
Awarded Feb 18 at 11:56
Differences between strelka and mutect
Awarded Feb 17 at 9:46
Estimate necessary sample-size for a phylogeny
Awarded Feb 14 at 13:02
Tool for phasing genotyped SV derived from short-read paired end data?
Awarded Feb 14 at 10:34
How do I convert data from an excel sheet into .json format properly according to a template?
Awarded Feb 10 at 6:48
Are group-specific resource constraints possible with Snakemake?
Awarded Feb 7 at 11:48
(post deleted or otherwise unavailable)
Awarded Feb 7 at 9:44
CytoHubba in Cytoscape 3.10.3 Not Loading Properly
Awarded Feb 7 at 0:26
Arnie (RNA Folding) Not Detecting ViennaRNA Even After Modifying utils.py
Awarded Feb 6 at 20:22
Post-Hoc Test for non-parametric and small dataset
Awarded Feb 6 at 16:57
How can I linearize certain segments within an existing protein structure constraining to volumetric grids using PyMOL scripting?
Awarded Feb 6 at 10:07
Low Memory Usage with DeepVariant
Awarded Feb 5 at 23:05
(post deleted or otherwise unavailable)
Awarded Feb 3 at 18:37
scATACseq / Mofit enrichment analysis error issue, too few background features
Awarded Jan 28 at 19:11
Interpreting read support for structural variants in Manta VCF output (PR and SR FORMAT fields)
Awarded Jan 27 at 16:49
How to filter metagenomic reads with a minimum identity of 95% using AWK or Pysam
Awarded Jan 24 at 20:22
Looking for guidance on running HOLE2 Program for aquaporin pore size analysis
Awarded Jan 22 at 19:51
Gromacs to Desmond topology
Awarded Jan 20 at 21:27
WGCNA sample-data preprocessing order
Awarded Jan 19 at 15:50
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