CVUA-RRW/FooDMe

A reproducible and scalable snakemake workflow for the analysis of DNA metabarcoding experiments, with a special focus on food and feed samples.

Language: Python - Size: 3.88 MB - Last synced: 21 days ago - Pushed: 21 days ago - Stars: 3 - Forks: 1

merlyescalona/ngsphy

NGSphy: phylogenomic simulation of next-generation sequencing data

Language: Python - Size: 16.3 MB - Last synced: 13 days ago - Pushed: about 6 years ago - Stars: 14 - Forks: 6

AnjanaSenanayake/DeepSelectNet

DeepSelecNet is an enhanced deep learning model to perform read classification for selective sequencing.

Language: C - Size: 39.1 MB - Last synced: 26 days ago - Pushed: about 1 year ago - Stars: 13 - Forks: 0

srinew/Targeted_RNA-seq_Heatmap

Create a normalized heatmap for targeted RNAseq count matrix using user-defined housekeeping gene normalization.

Language: R - Size: 722 KB - Last synced: about 2 months ago - Pushed: over 4 years ago - Stars: 2 - Forks: 0

nebiolabs/ampseer

Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing library they are read from. It is intended to differentiate between ARTIC v3, ARTIC v4, ARTIC v4.1, VarSkip 1a, VarSkip 2, Midnight and VarSkip Long primer sets sequenced by Illumina or ONT.

Language: Rust - Size: 22.7 MB - Last synced: 26 days ago - Pushed: 2 months ago - Stars: 12 - Forks: 1

sfilges/umiAnalyzer

Tools for analyzing UMIErrorCorrect output

Language: R - Size: 18.3 MB - Last synced: 3 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 2

amatov/NeurodegenerationDrugToxicology

Language: R - Size: 2.36 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 0 - Forks: 0

beroukhim-lab/ascets

This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm-level copy-number variant calls and arm-level weighted average log2 segment means from segmented copy number data.

Language: R - Size: 1.07 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 14 - Forks: 0

merlyescalona/refselector

For simulations of targeted-sequencing experiments under a known species/gene tree distribution, extracts the reference sequences that be used for mapping.

Language: Python - Size: 884 KB - Last synced: 7 months ago - Pushed: about 6 years ago - Stars: 0 - Forks: 0

CTrierMaansson/DNAfusion

Identification of gene-fusions, including EML4-ALK

Language: R - Size: 63.1 MB - Last synced: 15 days ago - Pushed: 7 months ago - Stars: 3 - Forks: 1

ndbrown6/innovation-lab

MSKCC CMO Innovation Lab

Language: Makefile - Size: 73.8 MB - Last synced: 9 months ago - Pushed: 12 months ago - Stars: 0 - Forks: 1

merlyescalona/cph-hummers-coverage-analysis

Coverage analysis of the data from the targeted-sequencing experiment of Hummingbirds (data from the paper Fonseca et al. 2018)

Language: HTML - Size: 65.2 MB - Last synced: 9 months ago - Pushed: over 6 years ago - Stars: 0 - Forks: 0

MBeyens/pyAmpli

pyAmpli: an amplicon-based variant filter pipeline for targeted enriched resequencing data

Language: Python - Size: 78.1 KB - Last synced: 7 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

CVUA-RRW/BAnalyzer 📦

Barcode Analyzer for metabarcoding experiments

Language: Python - Size: 34.2 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

LPDagallier/Clean_Melasto_probe_set

:leaves: :dna: :broom: Probe set cleaning (Melastomataceae)

Language: Shell - Size: 27.8 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

tadKeys/tabsat

Targeted Amplicon Bisulfite Sequencing Analysis Tool

Language: Perl - Size: 470 MB - Last synced: 6 months ago - Pushed: about 5 years ago - Stars: 11 - Forks: 3

GenomicsNX/QMRD

Targeted RNA-sequencing for the quantification of measurable residual disease in acute myeloid leukemia

Language: Python - Size: 22.5 KB - Last synced: about 1 month ago - Pushed: about 4 years ago - Stars: 1 - Forks: 2