Biopython - Tools for Biological Computation

Q

Where to find FAQ (Frequently Asked Questions) on Biopython - Tools for Biological Computation?

✍: FYIcenter.com

A

Here is a list of tutorials to answer many frequently asked questions compiled by FYIcenter.com team on Biopython - Tools for Biological Computation.

What Is Biopython

Install Biopython

Play with the Bio.Seq Module

Double Stranded DNA, mRNA and Transcription

mRNA, Protein and Translation

What Are Translation Tables

Single Sequence Record in FASTA Format

Single Sequence Record in GenBank Format

Play with the ls_orchid.fasta File

List NCBI Databases with Bio.Entrez.einfo()

Search NCBI Databases with Bio.Entrez.esearch()

Retrieve Record Summary with Bio.Entrez.esummary()

Fetch Sequences from NCBI with Bio.Entrez.efetch()

Search for Related Items in NCBI with Bio.Entrez.elink()

Global Query on All NCBI Databases with Bio.Entrez.egquery()

Search History with Bio.Entrez for Subsequent Calls

Fetch Sequences from SwissProt with Bio.ExPASy.get_sprot_raw()

Scan Prosite Databas with Bio.ExPASy.ScanProsite.scan()

Read Sequence Alignments with Bio.AlignIO

Calculate Substitutions in Alignments

Fetch Sequences from NCBI with Bio.Blast.NCBIWWW.qblast()

Use Bio.SearchIO Module to Parse BLAST XML Result

Parse PDB Entry with Bio.PDB.MMCIFParser.parser Module

Calculate Pairwise Sequence Alignment

Pairwise Sequence Alignment Score Settings

Too Many Results from align() Function

Pre-defined Sequence Alignment Score Settings

Get Help Documentation with Biopython

⇒ What Is Biopython

⇐ What Is OBF (Open Bioinformatics Foundation)

⇑⇑ OBF (Open Bioinformatics Foundation) Tools

2023-02-04, 795🔥, 0💬

Molecule FYI-1002132
Molecule Summary: ID: FYI-1002132 Names: InChIKey: XCUYWJKMSJIDKM-UHFFFAOYSA-N SMILES: CC(=O)CO.CC(=O)CO Received at FYIcenter.com on: 2023-02-04 2023-03-17, 2032🔥, 0💬

Molecule FYI-1002131
Molecule Summary: ID: FYI-1002131 Names: InChIKey: FCEOBCBWDCMLAV-YECYYMRXSA-N SMILES: C=C(C)[C@@]26O[C@@]8(c1ccccc1) O[C@@H]2[C@@H]5[C@@H]3O[C@]3(C O)[C@@H](O)[C@]4(O)C(=O)C(C)=C [C@H]4[C@]5(C[C@H]6OC(=O)/C=C/ C=C/c7ccccc7)O8Received at FYIcenter.com on: 2023-02-03 2023-03-17, 1990🔥, 0💬

Install Biopython
How to install Biopython? The easiest way to install Biopython is to use the "pip" command as shown below. 1. Make sure that Python 3 is installed. fyicenter$ python --version Python 3.8.8 2. Install Biopython. fyicenter$ pip install biopython Requirement already satisfied: numpy in ... Installing c... 2023-02-04, 933🔥, 0💬

mRNA, Protein and Translation
How to derive protein sequence from a mRNA sequence? Biologically, the protein sequence is produced by a translation process from a mRNA sequence. We can simulate this biological translation process using the translation() function. fyicenter$ python >>> from Bio.Seq import Seq ... 2023-03-17, 889🔥, 0💬

What Is Biopython
What is BioJava? Biopython is a set of freely available tools for biological computation written in Python by an international team of developers. Biopython versions and release dates are: Biopython 1.80, November 18, 2022 Main features of Biopython: The ability to parse bioinformatics files into Py... 2023-02-04, 850🔥, 0💬

What Is OBF (Open Bioinformatics Foundation)
What Is OBF (Open Bioinformatics Foundation)? OBF (Open Bioinformatics Foundation) is a non-profit, volunteer-run group dedicated to promoting the practice and philosophy of Open Source software development and Open Science within the biological research community. Currently, OBF supports the follow... 2023-02-04, 845🔥, 0💬

Biopython - Tools for Biological Computation
Where to find FAQ (Frequently Asked Questions) on Biopython - Tools for Biological Computation? Here is a list of tutorials to answer many frequently asked questions compiled by FYIcenter.com team on Biopython - Tools for Biological Computation. What Is Biopython Install Biopython Play with the Bio.... 2023-02-04, 796🔥, 0💬

About OBF (Open Bioinformatics Foundation)
Where to find FAQ (Frequently Asked Questions) in understanding what is OBF (Open Bioinformatics Foundation)? Here is a list of tutorials to answer many frequently asked questions compiled by FYIcenter.com team in understanding what is OBF (Open Bioinformatics Foundation). What Is OBF (Open Bioinfor... 2023-02-04, 748🔥, 0💬

Play with the Bio.Seq Module
How to import the Bio.Seq module and use its functions? Here are some examples on how to import the Bio.Seq module and use its functions. 1. Import the Bio.Seq module and create a Bio.Seq object. fyicenter$ python >>> from Bio.Seq import Seq >>> my_seq = Seq... 2023-02-04, 745🔥, 0💬

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