Jokendo-collab

Bioinformatics scientists

National Human Genome Research InstituteBethesda, Maryland, USA

Pinned Repositories

aced-bioinfo
Language:R1 1 01
immuneCellDeconvolution
This pipeline is used to determine different immune cell fractions from the bulk RNAseq
Language:R1 1 00
Javan_Okendo_biography
0 1 00
metabolomics_workflow
Metabolomics
Language:R1 0 00
paradisefish
This repository details the steps used in assembling paradise fish genome
Language:Shell00
spectralProcessing
This repository contains the information used in pre-processing of the MS/MS spectra and how this can be used to improve the identification of non-human peptides from the raw files
Language:R1 1 00
train
A simple Bioconductor package for analysis of proteomics data
1 1 00
zebrafish_T2T
Telomere-to-telomere consortium Zebrafish project
Language:HTML10

Jokendo-collab's Repositories

Jokendo-collab/aced-bioinfo
Language:R1 1 01
Jokendo-collab/zebrafish_T2T
Telomere-to-telomere consortium Zebrafish project
Language:HTML10
Jokendo-collab/Javan_Okendo_biography
0 1 00
Jokendo-collab/paradisefish
This repository details the steps used in assembling paradise fish genome
Language:Shell00
Jokendo-collab/alv
A console-based alignment viewer
Jokendo-collab/amr
AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
Language:C++0 0
Jokendo-collab/bacterialBioinformatics
Language:Shell
Jokendo-collab/Earwig_genome_project
This repository contains all the scripts used to assemble and annotate the Earwig genome
Language:Shell0 0
Jokendo-collab/emg-viral-pipeline
VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
Language:Python0 0
Jokendo-collab/FAMSA
Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
Jokendo-collab/fcs
Foreign Contamination Screening caller scripts and documentation
0 0
Jokendo-collab/gfastats
A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulation.
Language:C++0 0
Jokendo-collab/LDBlockShow
LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files
Jokendo-collab/Liftoff
An accurate GFF3/GTF lift over pipeline
Jokendo-collab/minibusco
A genome completeness evaluation tool based on miniprot
Language:Python0 0
Jokendo-collab/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
Language:Nextflow0 0
Jokendo-collab/odp
oxford dot plots
Language:Python0 0
Jokendo-collab/platon
Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.
Language:Python0 0
Jokendo-collab/pyMSAviz
MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
Jokendo-collab/quarTeT
A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification
Jokendo-collab/RagTag
Tools for fast and flexible genome assembly scaffolding and improvement
Language:Python0 0
Jokendo-collab/recan
genetic distance plotting for recombination events analysis
Jokendo-collab/RNA-seq
Step-by-step analysis pipeline for RNA-seq data
Language:Shell0 0
Jokendo-collab/scRNA_scATAc_seq
scRNA and scATAC analysis scripts
Language:Jupyter Notebook
Jokendo-collab/slugProject
Language:Visual Basic 6.0
Jokendo-collab/srf
SRF: Satellite Repeat Finder
Language:TeX0 0
Jokendo-collab/staramr
Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Jokendo-collab/TelFinder
de novo detect telomeric motif sequence
Jokendo-collab/trio_binning
Programs implementing the trio-binning genome assembly method
Language:Python0 0
Jokendo-collab/verkkoNF
Language:Shell