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Bioinformatics

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First question with score of 1 or more.
Awarded 1994 times.
(post deleted or otherwise unavailable)
Awarded yesterday
Integrate bulk RNA and ATAC-seq genes
Awarded Jun 1 at 20:03
Nucleotide alignments from mmseqs "tblastn"
Awarded May 31 at 16:18
How Can You Reformat an OTU Table from qiime2 pathway to Include Sequence IDs?
Awarded May 30 at 21:56
How do I color selective residues on the surface of a protein in pymol?
Awarded May 30 at 17:18
NA values from a URL import
Awarded May 29 at 23:15
Calculation of Site Frequency Spectrum (SFS) using STR data
Awarded May 29 at 23:06
Is there any way to handle CONECT records in AutoDock Vina?
Awarded May 25 at 21:04
Getting VCF file that contain common SNPs from 6 VCF file using isec
Awarded May 23 at 17:11
How can I delete these lines in my fastq file?
Awarded May 23 at 0:32
Is there any python module to assign secondary structures which includes both Polyprolene region as well as individual strand as well?
Awarded May 22 at 13:42
How to get a GISAID account? I registered months ago, still no reply!
Awarded May 19 at 18:08
How to normalise indel of different transcript direction?
Awarded May 19 at 16:06
Error while running computeMatrix command in Deeptools
Awarded May 11 at 17:15
Create bed file where each column is the number of intersections with another bed file
Awarded May 11 at 12:56
Blast output file only shows 500 lines -outfmt 6
Awarded May 9 at 21:28
WES variant calling with DNBSEQ-T7: technical quality assessment
Awarded May 9 at 21:28
maxquant error: Unhandled Exception: System.IndexOutOfRangeException: Index was outside the bounds of the array
Awarded May 8 at 15:20
Mapping statistics from the bam files
Awarded May 7 at 20:56
Low fraction reads in cell metric in snRNA-seq data
Awarded May 7 at 3:19
Salmon Pseudo count when dealing with male and female RNA-seq data
Awarded May 5 at 15:56
regex: samtools command to "refine" PacBio IsoSeq data?
Awarded May 5 at 1:36
How can I detect the Apo B gene mutations in my raw dna data?
Awarded May 4 at 16:26
Where do I get a large reference VCF?
Awarded May 3 at 19:36
Gene rank scores from LINCS database: Evangelista et al. 2022
Awarded May 3 at 14:55
How to identify all descendents of a branch on a phylogeny
Awarded May 3 at 1:56
How can I calculate the coverage of a gene in exome sequencing / calculate coverage per gene?
Awarded May 1 at 14:42
Correlate ssGSEA score with Seurat's scaled expression data
Awarded Apr 29 at 19:36
mapping nucleotide sequences
Awarded Apr 28 at 10:40
How can I make this Biopython program (to correct erroneous barcodes) run faster, and is there any alternative method?
Awarded Apr 25 at 10:25
GDC API: Obtain the Objective Power (or Magnification) of a WSI file
Awarded Apr 21 at 21:17
How do i search by these gene properties in NCBI's GenBank?
Awarded Apr 21 at 13:26
What does the IGV refseq genes with three different thicknesses of lines mean?
Awarded Apr 20 at 11:07
Integrating bulk RNA-Seq data with different sequencing depths and from different sources
Awarded Apr 14 at 1:03
Parsimony-distance neighborhoods in tree space
Awarded Apr 12 at 18:33
Good / recommended way to archive fastq and bam files?
Awarded Apr 11 at 12:10
When it is stated in your consumer genetics testing report that you have x% (lets say 1.3 percent...) Neanderthal DNA, what is actually meant?
Awarded Apr 7 at 13:06
Heritability estimate in LD Score Regression (LDSC)
Awarded Apr 4 at 19:50
DATES: sh: 1: dates_jackknife: not found
Awarded Apr 4 at 19:50
Where can I find examples of published bioinformatics pipeline packages? [closed]
Awarded Apr 3 at 9:55
How to differentiate DNA fastq and RNA fastq files?
Awarded Apr 1 at 20:40
How to extract sequences of a specific gene from genomes, with genomes' .fna, .gff and results from KofamScan?
Awarded Apr 1 at 11:42
Parallelize or qsub a bash script
Awarded Mar 31 at 11:36
RNAseq alignment: best practices for aligning to multiple isoforms?
Awarded Mar 30 at 19:35
Title: Error merging VCF files: "The REF prefixes differ: G vs A"
Awarded Mar 30 at 19:30
Manta "--exome: command not found"
Awarded Mar 29 at 1:47
(post deleted or otherwise unavailable)
Awarded Mar 28 at 22:49
ucsc-bedgraphtobigwig throwing memory allocation error
Awarded Mar 27 at 18:50
Problem with samtools command with a final hyphen
Awarded Mar 24 at 11:18
Extract specific nucleotide base position for query and subject from text file
Awarded Mar 23 at 19:45
RNAseq: Why would using a more complete scaffold reduce DEGs?
Awarded Mar 23 at 13:55
Generating gene signature for sample classification and survival analysis patient cohort
Awarded Mar 22 at 8:27
Convert Abricate output tsv file to gff3 format
Awarded Mar 21 at 20:41
Simes method in R
Awarded Mar 20 at 18:41
Nextflow Pipeline: Unexpected Input "{"
Awarded Mar 20 at 6:52
sra toolkit fastq-dump comand not terminating
Awarded Mar 19 at 19:37
Loss of predictive power of polygenic risk score when dataset contains missing variants
Awarded Mar 18 at 19:10
Given a FASTA file with a set of genes, how do I determine that set's conservation among a genetic order?
Awarded Mar 17 at 21:31
Extracting positions from PAF files in order to extract sequences from a Fastq file with Python
Awarded Mar 17 at 14:19
STACKS: process_radtags only reads 1 input file and returns >90% barcode not found drops
Awarded Mar 16 at 16:25
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