{"id":23057380,"url":"https://github.com/applicativesystem/genome-size-estimates","last_synced_at":"2025-04-03T06:12:44.365Z","repository":{"id":262142581,"uuid":"844682570","full_name":"applicativesystem/genome-size-estimates","owner":"applicativesystem","description":"estimating the genome size from illumina genome-seq and plotting the genome size. ","archived":false,"fork":false,"pushed_at":"2024-09-12T08:04:53.000Z","size":4,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2024-12-16T02:12:09.011Z","etag":null,"topics":["bioinformatics","genome-analysis","genome-size","genome-size-estimation","illumina","illumina-sequencing","rlanuage","rscript"],"latest_commit_sha":null,"homepage":"","language":"Shell","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/applicativesystem.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2024-08-19T18:58:49.000Z","updated_at":"2024-09-12T08:05:52.000Z","dependencies_parsed_at":"2024-11-10T20:18:13.119Z","dependency_job_id":"1ee87a82-0cfd-4b68-8786-f6aee5a34fdb","html_url":"https://github.com/applicativesystem/genome-size-estimates","commit_stats":null,"previous_names":["applicativesystem/genome-size-estimates"],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/applicativesystem%2Fgenome-size-estimates","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/applicativesystem%2Fgenome-size-estimates/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/applicativesystem%2Fgenome-size-estimates/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/applicativesystem%2Fgenome-size-estimates/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/applicativesystem","download_url":"https://codeload.github.com/applicativesystem/genome-size-estimates/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":237863998,"owners_count":19378257,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["bioinformatics","genome-analysis","genome-size","genome-size-estimation","illumina","illumina-sequencing","rlanuage","rscript"],"created_at":"2024-12-16T02:12:06.475Z","updated_at":"2025-02-08T19:45:02.987Z","avatar_url":"https://github.com/applicativesystem.png","language":"Shell","funding_links":[],"categories":[],"sub_categories":[],"readme":"# illumina-genome-size\nestimation of the genome size for the illumina reads, only for the pre-screening purposes. if you have multiple illumina reads from the miseq, nextseq, and other illumina platform a short function to estimate the genome size. You can also write using the pillow library in python but i want to write today R. If you want me to write in python then leave a comment. give the fastq reads directory path and it will output calling a R function with publication ready figures.\n\n\u003e source the R function\n```\n#!/usr/bin/R\n# -*- coding:  utf-8 -*-\n# Author: Gaurav \n# date: 2023-10-23\nstacking_option \u003c- function(){\n    library(dplyr)\n    library(magick)\nimage_path \u003c- character(length(list.files(path=\".\", pattern=\"*.png\")))\nfor (i in seq_along(list(path=\".\", pattern=\"*.png\"))){\n    image_path[i] \u003c- paste0(getwd(),\"/\",list.files(path=\".\", pattern=\"*.png\")[i])\n    a \u003c- image_path[1]\n    b \u003c- image_path[2]\n    c \u003c- image_path[3]\n    d \u003c- image_path[4]\n    image_write(image_append(c(a,b,c,d), stack=TRUE), \"genome_estimation.png\")\n}\n}\n```\nGaurav Sablok \\\nUniversity of Potsdam \\\nPotsdam,Germany \n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fapplicativesystem%2Fgenome-size-estimates","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fapplicativesystem%2Fgenome-size-estimates","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fapplicativesystem%2Fgenome-size-estimates/lists"}