OBF (Open Bioinformatics Foundation) Tools

Q

Where to find molecule FAQ (Frequently Asked Questions)? I want to learn more about OBF (Open Bioinformatics Foundation) and its software tools.

✍: FYIcenter.com

A

Here is a large collection of tutorials to answer many frequently asked questions compiled by FYIcenter.com team about OBF (Open Bioinformatics Foundation) and its software tools:

About OBF (Open Bioinformatics Foundation)

What Is OBF (Open Bioinformatics Foundation)

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 Database 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

Biopython for Sequence Motif Analysis

What Is Sequence Motif Analysis

Create Motif With Biopython Bio.motifs Module

Motif Counts and Consensus with Bio.motifs

Read Motif in JASPAR Format with Bio.motifs

Motif PCM, PFM, PPM, PWM with Bio.motifs

Motif PSSM with Bio.motifs

Sequence Score against PSSM with Bio.motifs

Search for Motif Matches with Bio.motifs

Compare Motifs Using PSSM with Bio.motifs

Motif ICM with Bio.motifs

Motif ICM as Relative Divergence with Bio.motifs

Motif ICM Logo with WebLogo Tools

BioJava - Java Bioinformatics Toolkit

What Is BioJava

BioJava Library Installation Options

Use BioJava with "Maven" Build Tool

Read FASTA File with FastaReaderTeat.java

"mvn dependency:build-classpath" - Generate Class Pass

BioPerl - Perl Bioinformatics Toolkit

What Is BioPerl

BioPerl Modules Installation Options

HOWTO Documents at BioPerl.org

Install BioPerl Package with "cpanm"

Install BioPerl Package Manually

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About OBF (Open Bioinformatics Foundation)

2023-02-04, 530🔥, 0💬