Pinned Repositories
biotoolbox
Tools for querying and analysis of genomic data
GrowthCurveAnalysis
Intron_Enrichment_Score
The intronic enrichment score calculates the average coverage of RNA-seq reads over introns relative to neighboring exons in Saccharomyces cerevisiae. This score can be used to quantify enrichment of nascent transcripts from techniques such as 4tU-seq and TT-seq or to quantify defects in transcript splicing.
IntronExon_Junction_Splice_Ratio
Code and associated annotation file to count the ratio of spliced an unspliced reads for all intron-containing genes.
MatchingIndex
This repository can be used to convert survey results into mentor, mentee compatibility scores.
Nucleosome_Entry_Exit_Analysis_Code
Source code for processing RNA-seq, ChIP-seq, and MNase-Seq data for Hildreth et al. "Mutations that alter the nucleosome DNA entry-exit site impair transcription termination in vivo"
RNAseq_analysis_code
This repository holds code for RNA-seq analysis handling stranded and un-stranded RNA-seq data.
SpikeinCorrectionFactor
Code related to calculating a corrective scaling factor to detect and correct for off-expecation ratios of sample to spike in for NGS experiments.
OMOPOmics
Patient 'omics data in OMOP format
birdsurvey
birdsurvey for class
amfrancette's Repositories
amfrancette/IntronExon_Junction_Splice_Ratio
Code and associated annotation file to count the ratio of spliced an unspliced reads for all intron-containing genes.
amfrancette/biotoolbox
Tools for querying and analysis of genomic data
amfrancette/GrowthCurveAnalysis
amfrancette/Intron_Enrichment_Score
The intronic enrichment score calculates the average coverage of RNA-seq reads over introns relative to neighboring exons in Saccharomyces cerevisiae. This score can be used to quantify enrichment of nascent transcripts from techniques such as 4tU-seq and TT-seq or to quantify defects in transcript splicing.
amfrancette/MatchingIndex
This repository can be used to convert survey results into mentor, mentee compatibility scores.
amfrancette/Nucleosome_Entry_Exit_Analysis_Code
Source code for processing RNA-seq, ChIP-seq, and MNase-Seq data for Hildreth et al. "Mutations that alter the nucleosome DNA entry-exit site impair transcription termination in vivo"
amfrancette/RNAseq_analysis_code
This repository holds code for RNA-seq analysis handling stranded and un-stranded RNA-seq data.
amfrancette/SpikeinCorrectionFactor
Code related to calculating a corrective scaling factor to detect and correct for off-expecation ratios of sample to spike in for NGS experiments.