Tags

A tag is a keyword or label that categorizes your question with other, similar questions. Using the right tags makes it easier for others to find and answer your question.

A file format used in structural biology to describe the 3-D coordinates of atoms of a biological structure, often a protein. Can also refer to the Protein Data Bank database, which stores all the sub…
84 questions
to refer to the questions related to NCBI
83 questions
Questions specific to nanopore sequencing. For general question about long reads, use tag long-reads instead and for questions about specific sequencer use a specific sequencer tag (i.e. minion, gridi…
78 questions
File format are sets of defined rules to organise a specific type of data. Common file format in bioinformatics include FASTA, FASTQ, SAM, BAM, VCF.
75 questions
to refer to the questions related to the Linux and Unix shell abbreviated as bash (Bourne Again SHell). It has notable programmatic strengths over C shell (csh) and touch C shell (tcsh)
74 questions
When dealing with associating sequencing reads to a matching position in a set of reference sequences (typically a genome).
73 questions
Clustering is the task of grouping a set of objects in such a way that objects in the same group (called a cluster) are more similar (in some sense) to each other than to those in other groups (cluste…
72 questions
use for questions regarding plotting and representation of data, combine with tags specific to type of analyses (genome, protein, rna-seq) and language or library (python, R, ggplot2, igv) if applicab…
72 questions
to refer questions that are related to rna sequence.
67 questions
Questions asking whether a software exists for a certain purpose; questions asking which software is best among a selection for a certain purpose.
67 questions
The set of all transcripts of a biological entity, e.g. the transcriptome of a single cell, of a tissue, of an organ, of an individual, of a species. Can also be used to refer to a subset of the trans…
67 questions
62 questions
The tricky art of scaling quantitative data across libraries, typically to account for differences in sequencing depth. This can also be about scaling for read source length, like transcript or gene l…
59 questions
Advanced R visualisation and plotting package based on the grammar of graphics. ggplot2 is also available in Python via 'plotnine' which uses ggplot2 code
58 questions
questions involving microarray analysis (e.g. Illumina BeadChip, Affymetrix GeneChip)
52 questions
51 questions
A reference genome (also known as a reference assembly) is a digital nucleic acid sequence database, assembled by experts as a representative example of a species' set of genes.
50 questions
50 questions
to refer to the questions related to snakemake
49 questions
Predicting in silico where a ligand binds within a protein structure or how two proteins bind to each other. Common operations include creating 3D conformers from SMILES, parameterising the ligand, d…
47 questions
A subset of articial intelligence methods which 'learn' through training on real-world data sets. The model is then tested on a 'test' data set and initially assessed through an accuracy measure. The …
46 questions
bwa (Burrows-Wheeler Aligner) is a software for aligning reads obtained with Next Generation Sequencing.
43 questions
Browser Extensible Data, a collection of related plain text formats for describing genome features for visualization with genome browsers.
43 questions
Questions relating to the conversion of one format (e.g. FASTQ) into another (FASTA).
42 questions
Whole genome sequencing. Can refer to sequencing that is done on the entire genomic DNA, as opposed to techniques that only sequence a subset of the genome, like ChIP, RAD-seq or exome sequencing.
42 questions
Refers to genetic variation such as SNPs, indels, and structural variants within a population or between individuals.
42 questions
An abnormal growth of cells that can threaten an individual's life. Cancerous cells are very proliferative and can spread to other parts of the body, creating metastases.
41 questions
Questions relating to long reads, such as pacbio or nanopore reads.
41 questions
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