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14810 skills availablebio-reverse-complement
Generate complementary and reverse complementary sequences using Biopython. from Bio.Seq import Seq Returns the reverse ...
bio-restriction-enzyme-selection
from Bio import SeqIO from Bio.Restriction import Analysis, CommOnly, AllEnzymes record = SeqIO.read('sequence.fasta', '...
bio-research-tools-biomarker-signature-studio
Design validated biomarker panels that are explainable, stable, and ready for translational follow-up. This skill stitch...
bio-reporting-rmarkdown-reports
--- title: "RNA-seq Analysis Report" author: "Your Name" date: "r Sys.Date()" output: htmldocument: toc: true tocfloat: ...
bio-reporting-quarto-reports
--- title: "Analysis Report" author: "Your Name" date: today format: html: toc: true code-fold: true theme: cosmo --- --...
bio-reporting-figure-export
import matplotlib.pyplot as plt plt.rcParams.update({ 'font.size': 8, 'font.family': 'Arial', 'axes.linewidth': 0.5, 'li...
bio-read-sequences
Reference examples tested with: BioPython 1.83+ Before using code patterns, verify installed versions match. If versions...
bio-read-qc-umi-processing
Reference examples tested with: pandas 2.2+, samtools 1.19+ Before using code patterns, verify installed versions match....
bio-read-qc-quality-filtering
Reference examples tested with: Trimmomatic 0.39+, cutadapt 4.4+, fastp 0.23+ Before using code patterns, verify install...
bio-read-alignment-star-alignment
STAR --runMode genomeGenerate \ --runThreadN 8 \ --genomeDir starindex/ \ --genomeFastaFiles reference.fa \ --sjdbGTFfil...
bio-read-alignment-bowtie2-alignment
bowtie2-build reference.fa referenceindex bowtie2-build --threads 8 reference.fa referenceindex bowtie2 -p 8 -x referenc...
bio-reaction-enumeration
Reference examples tested with: RDKit 2024.03+ Before using code patterns, verify installed versions match. If versions ...
bio-proteomics-quantification
Reference examples tested with: MSnbase 2.28+, numpy 1.26+, pandas 2.2+ Before using code patterns, verify installed ver...
bio-proteomics-protein-inference
Reference examples tested with: pyOpenMS 3.1+ Before using code patterns, verify installed versions match. If versions d...
bio-proteomics-differential-abundance
Reference examples tested with: R stats (base), ggplot2 3.5+, limma 3.58+, numpy 1.26+, pandas 2.2+, scipy 1.12+, statsm...
bio-proteomics-dia-analysis
Reference examples tested with: numpy 1.26+, pandas 2.2+ Before using code patterns, verify installed versions match. If...
bio-primer-design-qpcr-primers
Design primers and internal probes for quantitative PCR using primer3-py. import primer3 from Bio import SeqIO sequence ...
bio-primer-design-primer-validation
Check primers for secondary structures, dimers, and other issues using primer3-py. import primer3 primer = 'ATGCGATCGATC...
bio-population-genetics-selection-statistics
Detect natural selection signatures using diversity statistics and extended haplotype homozygosity. import allel import ...
bio-population-genetics-population-structure
Analyze genetic ancestry and population stratification using PCA and ADMIXTURE. plink2 --bfile data --pca 10 --out pcare...
bio-population-genetics-linkage-disequilibrium
Calculate LD statistics, prune correlated variants, and identify haplotype blocks. plink2 --bfile data --r2 --ld-window-...
bio-population-genetics-association-testing
GWAS analysis using PLINK 2.0's unified --glm command for case-control and quantitative traits. plink2 --bfile data --gl...
bio-pileup-generation
Generate pileup data for variant calling and position-level analysis. Pileup shows all reads covering each position in t...
bio-phylo-tree-io
Parse, write, and convert phylogenetic tree files in various formats. from Bio import Phylo from io import StringIO | Fo...