Author: gene_x

Abstract: PICRUSt2 (Phylogenetic Investigation of Communities by Reconstruction of Unobserved States) is a bioinformatics tool used to predict the functional content of a microbial community based on marker gen

Author: gene_x

Abstract: Biopython does not have built-in support for KEGG database. However, you can use the bioservices library to retrieve and interact with KEGG data. To fetch all available genes in the KEGG database, you

Author: gene_x

Abstract: #-- view process.py -- with open("MT880872_CDS.fasta", "r") as f: for line in f: if line.startswith(">"): header_words = line.strip().split("locus_tag=")

Author: gene_x

Abstract: Here are 47 popular functions in Biopython: - Seq: Represents a biological sequence, such as DNA or protein. - SeqRecord: Represents a sequence with metadata, including ID and description. - SeqIO: H

Author: gene_x

Abstract: -- 0, generate the ref.gtf and ref.bed from GenBank file: HD21-2_new.gtf and HD21-2_new.bed -- #[PREPARE gtf from gff] https://github.com/gpertea/gffread/issues/3 #DEL gb2

Author: gene_x

Abstract: Biopython is a useful library for working with biological data in Python. You can use it to download sequences from GenBank by specifying a taxonomy ID. Here's a code example to download sequences usi

Author: gene_x

Abstract: GPT (short for "Generative Pre-trained Transformer") is a type of transformer model, which is an advanced deep learning architecture. It is based on the Transformer architecture introduced by Vaswan

Author: gene_x

Abstract: import plotly.graph_objects as go import pandas as pd from sklearn.decomposition import PCA import numpy as np from scipy.linalg import eigh, sqrtm # Read i

Author: gene_x

Abstract: There are many command-line tools and utilities that can be useful in bioinformatics for quick data processing, analysis, and manipulation. Some of these oneliner tools include: - awk: A versatile te

Author: gene_x

Abstract: Biopython is a powerful library for bioinformatics that provides tools for manipulating biological sequences, working with 3D structures, performing genome analysis, and more. Among its many features,