Bioinformatics Beta

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 Student
First question with score of 1 or more.
Awarded 1017 times.
How to reduce the occupied RAM when you are dealing with a very sparse matrix in a single-cell Experiment in R?
Awarded 5 hours ago
how to have a blast xml file in a readable and understandable way
Awarded 23 hours ago
Calculating average coverage for .bam files (sequence data)
Awarded 2 days ago
BWA: Detecting Variation between Reference Genome and Short-Read Sequences
Awarded Jul 1 at 21:03
How to calculate module-trait relationship when trait data is in binary format?
Awarded Jul 1 at 17:27
How can I obtain a list of all NCBI gene ID's along with their full name, symbol, and also known as symbols?
Awarded Jun 29 at 13:02
Modify how a script prints the output?
Awarded Jun 26 at 13:11
How to aggregate multiple MAF files together?
Awarded Jun 25 at 7:51
Do you know a program/script to count how many sequences have mismatches on each position of my primers?
Awarded Jun 24 at 1:25
How do I set a neural network to loop multiple times and average the resulting values?
Awarded Jun 23 at 20:33
How to design DESeq2 LRT model with individuals nested in 2 levels?
Awarded Jun 23 at 15:15
What are the state-of-the-art cell-type RNA-Seq deconvolution methods?
Awarded Jun 23 at 14:43
RNA-Seq data transformation prior to sample correlation analysis
Awarded Jun 23 at 1:27
Comparing multiple treatments to multiple other treatments in edgeR for simple effects in a complex experimental design
Awarded Jun 16 at 20:56
Parsing a GenBank file with multiple gene entries
Awarded Jun 14 at 13:25
Combine structures in the same session - PyMOL
Awarded Jun 14 at 6:26
Where can I find lncRNA expression data for different cell types?
Awarded Jun 12 at 4:42
ERROR: (subscript) logical subscript too long
Awarded Jun 11 at 19:45
Why is there a chloride ion in this 3D model?
Awarded Jun 5 at 10:16
mining DNA barcodes from Genebank/BOLD per location
Awarded Jun 4 at 11:12
Motivation behind the neighbor-joining distance matrix recomputation
Awarded May 31 at 11:45
How can I plot multiple sequence alignment in R as a heatmap
Awarded May 30 at 22:36
Converting aligned fasta to plink ped/bed
Awarded May 30 at 8:03
Is there a FASTA Sequence Description Nomenclature to Indicate a Split Sequence or Subsequence?
Awarded May 29 at 15:26
include a glimma interface in a shiny app
Awarded May 28 at 20:34
16S species-level taxonomic assignment--what is the current state of the art?
Awarded May 26 at 6:57
Global SNP frequency database?
Awarded May 26 at 0:47
Edit FASTA header using sed
Awarded May 25 at 11:18
Why does the Genbank phylogenetic tree of 4000 sars-cov-2 sequences only display 200 nodes?
Awarded May 24 at 14:49
Outputting crunchable list of HBonds from Pymol
Awarded May 22 at 14:21
Available Protein sequence alignment dataset and HMM model
Awarded May 21 at 23:51
How to specifically select cluster on Featurescatter on Seurat?
Awarded May 21 at 23:43
Calculating polarity and hydrophobicity of a ligand/small molecule
Awarded May 21 at 10:07
Where can I visualize Ramachandran plot?
Awarded May 21 at 10:07
Receptor-Ligand R-package for visualization
Awarded May 19 at 20:15
Inflated p-values in quantitative trait analysis
Awarded May 19 at 8:56
Pipeline to analyse small RNAseq and tRNAs?
Awarded May 19 at 5:06
Should biological replicates be the most similar pairs in an RNAseq experiment?
Awarded May 17 at 22:04
miRNA dataset for prediction experiments
Awarded May 17 at 11:20
umap and Louvain clustering on normalized data
Awarded May 11 at 9:27
Evaluating amateur bioinformatics results
Awarded May 10 at 20:05
How to convert BAM file to bigWig in Python?
Awarded May 10 at 11:47
EGA remote download via snakemake fails due to EGA_CLIENT_ID specification
Awarded May 6 at 13:46
How to remove sequence reads contains more than 2 X from multifasta file?
Awarded May 6 at 12:35
Passing custom distance matrix to T_Coffee
Awarded May 6 at 8:06
How to query NCBI (Nucleotide database) by a feature qualifier?
Awarded May 5 at 12:19
Extract autodocked protein-ligand connections programatically
Awarded May 4 at 21:17
What is PyMOLs search path for scripts?
Awarded May 4 at 12:47
Calculating Unifrac Distance and missing data
Awarded May 2 at 19:27
Why this ballgown error (first column of pData does not match the names of the folders) comes out
Awarded May 2 at 11:27
Is there a built-in parser for the textual feature table that Entrez.efetch returns?
Awarded May 1 at 19:27
MSA (protein) with biopython or something else?
Awarded May 1 at 19:06
Downloading all COI sequences from BOLD fails
Awarded May 1 at 15:32
What does it mean if aligned genomes are not of the same length?
Awarded May 1 at 7:27
Generate an approapite output from DNaSP6 to Arlequin program
Awarded Apr 29 at 11:32
remove sequences from fasta file matching a string in the header
Awarded Apr 29 at 3:16
Running snakemake with multiple conda environments without rebuilding environments every time
Awarded Apr 28 at 12:42
Pindel has an extremely large output
Awarded Apr 28 at 12:27
Model the effect of treatment on mutation burden
Awarded Apr 27 at 17:19
After completing the evaluation, how to predict PTM lysine or any other modification with unlabeled data for making a web server?
Awarded Apr 27 at 9:51
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