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Bioinformatics

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First edit.
Awarded 1587 times.
STACKS process_radtags for demultiplexing RAD-seq data returning 57.5% "barcode not found" drops, retaining only 41.2% of reads
Awarded yesterday
ChimeraX AlphaFold3 prediction pseudobond naming
Awarded 2 days ago
How to quickly and robustly convert between mmCIF and PDB?
Awarded May 6 at 11:51
Weighted mean allele frequency (x-chromosome) calculation
Awarded Apr 10 at 7:31
How to match output alleles of modkit and sniffles2 outputs in the wf human variation pipeline?
Awarded Apr 8 at 8:31
Different layout after saving Cytoscape network
Awarded Apr 2 at 13:39
How can I group mitochondrial heteroplasmy into bins based on age
Awarded Mar 26 at 13:55
How and why do alignment algorithms work?
Awarded Mar 18 at 13:19
Reference genome masking reason for particular position
Awarded Mar 18 at 10:53
How to view the position of certain sequence in IGV?
Awarded Mar 10 at 17:56
Small pVCF file along with some phenotype information for RVAS tool testing
Awarded Feb 28 at 12:52
Variant missing in WES Analysis
Awarded Feb 26 at 22:55
Tool for phasing genotyped SV derived from short-read paired end data?
Awarded Feb 20 at 21:16
Why does the predicted structure shift in alphafold multimers?
Awarded Feb 18 at 5:45
Handling Mismatched Read Counts in Paired-End scRNA-seq FASTQ Files with fastp
Awarded Feb 17 at 22:06
Differences between strelka and mutect
Awarded Feb 17 at 20:27
(post deleted or otherwise unavailable)
Awarded Feb 8 at 21:57
Low Memory Usage with DeepVariant
Awarded Feb 6 at 12:31
scATACseq / Mofit enrichment analysis error issue, too few background features
Awarded Jan 28 at 15:50
Statistical Analysis of Autodock Vina Result (Binding Affinity)
Awarded Jan 10 at 23:21
Why doesn't Bio.PairwiseAligner output the same alignments as EMBOSS needle?
Awarded Jan 8 at 22:10
How to connect the tips of several phylogenetic trees with ggtree?
Awarded Jan 7 at 11:21
How do I group sequences by species with a guide tree in IQ-TREE for -asr?
Awarded Dec 31, 2024 at 19:09
Should I apply PCA on the combined scRNA dataset or on each individual file?
Awarded Dec 31, 2024 at 17:23
What's the best way to align a protein-coding sequence to an unannotated genome?
Awarded Dec 30, 2024 at 9:35
strategy for generating a genotype likelihood file from large bam files and many samples
Awarded Dec 29, 2024 at 21:50
Can Cytoscape 3 export network.js as UTF-8?
Awarded Dec 20, 2024 at 4:21
(post deleted or otherwise unavailable)
Awarded Dec 18, 2024 at 19:32
Which source is correct in Uniprot at subcellular location info?
Awarded Dec 14, 2024 at 20:07
Gene Sequence retrieval (NCBI vs Ensembl)
Awarded Dec 13, 2024 at 11:16
(post deleted or otherwise unavailable)
Awarded Dec 12, 2024 at 9:18
Connecting and merging multiple RNA 3D structures in PyMol/Chimera
Awarded Dec 12, 2024 at 4:15
Reproduce Seurat Heatmap with ComplexHeatmap
Awarded Dec 11, 2024 at 16:05
Basic question on identifying SNP characteristics based on location and chromosome
Awarded Dec 9, 2024 at 15:17
how to combine cpg information on both strands in analysis?
Awarded Dec 7, 2024 at 10:07
Are there efficient tools for PANGENOMES visualization (GFA size >2GB)?
Awarded Nov 27, 2024 at 15:16
Metabolite function from DNA sequences
Awarded Nov 23, 2024 at 8:31
What do the different node colors mean in the Cytoscape ReactomeFIViz functional interaction network?
Awarded Nov 22, 2024 at 20:21
Upstream processing of raw single-cell sequencing data from bcl2fastq
Awarded Nov 15, 2024 at 6:27
BCFTOOLS: command does not work correctly. Can you help me?
Awarded Nov 13, 2024 at 22:37
(post deleted or otherwise unavailable)
Awarded Nov 11, 2024 at 16:20
retrieving divergent regions of a pairwise alignment
Awarded Nov 5, 2024 at 16:40
Requesting help with Edge Weighted Graph Creation (Cytoscape)
Awarded Nov 1, 2024 at 20:49
How to get fasta alignment file from SAM/BAM file?
Awarded Nov 1, 2024 at 10:04
Snakemake on Slurm and job grouping
Awarded Oct 30, 2024 at 16:23
(post deleted or otherwise unavailable)
Awarded Oct 30, 2024 at 13:31
KeggScape Network Import Issue
Awarded Oct 26, 2024 at 6:42
When calculating Faith pd with picante package in R species richness appears very low for most samples but that is not true
Awarded Oct 22, 2024 at 2:27
What are some good protein databases to use? Trying to find neuraminidase sequences for influenza
Awarded Oct 17, 2024 at 12:20
Keggscape Install bug
Awarded Oct 10, 2024 at 18:04
Install PacBio lima via conda fails
Awarded Oct 8, 2024 at 21:01
pca plot from multiple sequence alignment
Awarded Oct 7, 2024 at 7:40
Keggscape Install bug
Awarded Oct 4, 2024 at 13:18
Nextflow Best Practice When Collecting a Large Number of Files in One Step
Awarded Sep 27, 2024 at 17:16
How to deal with overlapping structural variants?
Awarded Sep 25, 2024 at 1:15
Finding transcriptome matches for thousands of 21-mers
Awarded Sep 24, 2024 at 20:10
(post deleted or otherwise unavailable)
Awarded Sep 18, 2024 at 11:51
How to adjust QIIME DADA2 parameters to avoid eliminating real sequences
Awarded Sep 10, 2024 at 11:17
Too many requests error when querying NCBI
Awarded Sep 6, 2024 at 11:09
How to download the same 18S rRNA gene region for multiple species?
Awarded Sep 2, 2024 at 10:56
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