carpentries-lab/metagenomics-analysis issues and pull requests

#84 - Update 04-assembly.md

Pull Request - State: closed - Opened by DaianaGuerrero 9 months ago

#83 - How to recreate kraken results? Which database?

Issue - State: open - Opened by cgaylord-gwu 11 months ago

#82 - Spelling/grammar fixes, and question/solution formatting

Pull Request - State: closed - Opened by kerchner 12 months ago - 1 comment

#81 - Update link to setup instructions

Pull Request - State: closed - Opened by kerchner about 1 year ago - 1 comment

#80 - Style for The Carpentries Lab

Pull Request - State: closed - Opened by tobyhodges over 1 year ago

#79 - Update 08-Diversity-tackled-with-R.md

Pull Request - State: closed - Opened by valeriafloral over 1 year ago - 1 comment

#78 - The AMI is dirty

Issue - State: closed - Opened by Czirion over 1 year ago - 4 comments

#77 - Say something about the thrid sample

Issue - State: closed - Opened by Czirion over 1 year ago

#76 - Review the Kraken command

Issue - State: closed - Opened by Czirion over 1 year ago - 1 comment

#75 - Quast

Issue - State: closed - Opened by Czirion over 1 year ago - 1 comment

#74 - RStudio not working in AWS

Issue - State: closed - Opened by Czirion over 1 year ago - 1 comment

#73 - metadata

Issue - State: closed - Opened by Czirion over 1 year ago

#72 - Add "not spaces in file names" in the Data tidiness

Issue - State: closed - Opened by Czirion over 1 year ago

#71 - Background running

Pull Request - State: closed - Opened by JesseKerkvliet over 1 year ago - 1 comment

#70 - Provide additional data and setup instructions for local users

Issue - State: closed - Opened by samnooij over 1 year ago - 3 comments

#69 - Remove backticks and whitespaces after shell commands

Pull Request - State: closed - Opened by samnooij over 1 year ago

#68 - Database for taxonomic assignment

Issue - State: closed - Opened by Czirion over 1 year ago

#67 - Minor textual improvements

Pull Request - State: closed - Opened by samnooij over 1 year ago

#66 - Adapter files

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#65 - Add files via upload

Pull Request - State: closed - Opened by lugetego almost 2 years ago

#64 - Add explanation about factors in Intro to R

Issue - State: closed - Opened by Czirion almost 2 years ago

#63 - R no despliega graficas

Issue - State: closed - Opened by Czirion almost 2 years ago - 5 comments

#62 - Required software setup section

Issue - State: closed - Opened by Czirion almost 2 years ago - 4 comments
Labels: high priority

#61 - Typos

Issue - State: closed - Opened by Czirion almost 2 years ago - 2 comments
Labels: status:in progress, high priority

#60 - Exercises and discussions in Data processing lesson

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#59 - Provide files created during the lesson

Issue - State: closed - Opened by Czirion almost 2 years ago - 2 comments
Labels: status:in progress, high priority

#58 - Improve Trimming and Filtering episode

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#57 - Improve Assessing Read Quality episode

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment
Labels: status:in progress, high priority

#56 - Data processing and visualization too dense

Issue - State: closed - Opened by Czirion almost 2 years ago - 2 comments
Labels: high priority

#55 - Variable names in Intro to R

Issue - State: closed - Opened by Czirion almost 2 years ago - 2 comments

#54 - Improve R datatypes

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#53 - Spanish names

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#52 - Intro to R for metagenomics is misleading

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#51 - Graphics of Taxonomic Analysis with R

Issue - State: closed - Opened by Czirion almost 2 years ago
Labels: status:wait

#50 - Learning objectives in Intro to R

Issue - State: closed - Opened by Czirion almost 2 years ago

#49 - Intro to Command Line too dense

Issue - State: closed - Opened by Czirion almost 2 years ago - 2 comments

#48 - Improve Writing Scripts and Working with Data

Issue - State: closed - Opened by Czirion almost 2 years ago - 6 comments
Labels: status:in progress, type:discussion, high priority

#47 - Improve Redirection

Issue - State: closed - Opened by Czirion almost 2 years ago - 3 comments
Labels: status:need more info, high priority

#46 - Improve Working with Files and Directories

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#45 - Improve Introducing the Shell

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment
Labels: high priority

#44 - Alternative text of images

Issue - State: closed - Opened by Czirion almost 2 years ago - 2 comments

#43 - Improve discussions in Project Organization and Management lesson

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#42 - Image transcription in Examining Data on the NCBI SRA Database

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment
Labels: status:in progress

#41 - Update zenodo link in Examining Data on the NCBI SRA Database

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#40 - Improve Structuring data in spreadsheets in Data Tidiness

Issue - State: closed - Opened by Czirion almost 2 years ago

#39 - Improve Data about the experiment in Data Tidiness

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#38 - Add confidentiality in Data Tidiness

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#37 - Improve Examining Data on the NCBI SRA Database episode

Issue - State: closed - Opened by Czirion almost 2 years ago - 1 comment

#36 - Workshop prerequisites

Issue - State: closed - Opened by Czirion almost 2 years ago - 2 comments

#35 - Fix Japanese typo

Pull Request - State: closed - Opened by samnooij almost 2 years ago - 1 comment

#34 - Create javascript.html

Pull Request - State: closed - Opened by karinaeg about 2 years ago

#33 - Create touch

Pull Request - State: closed - Opened by karinaeg about 2 years ago

#32 - Develop Instructor Notes

Issue - State: closed - Opened by Czirion about 2 years ago - 2 comments
Labels: status:wait

#31 - Replace formula images with MathJax

Issue - State: closed - Opened by tobyhodges about 2 years ago - 12 comments
Labels: type:bug

#30 - apply Carpentries Incubator template

Pull Request - State: closed - Opened by tobyhodges over 2 years ago

#29 - Misformatted exercise

Issue - State: closed - Opened by tobyhodges over 2 years ago

#28 - Update 08-hands_on-diversity.md

Pull Request - State: closed - Opened by IvanHpina over 2 years ago

#27 - Update 07-Diversity-tackled-with-R.md

Pull Request - State: closed - Opened by IvanHpina over 2 years ago

#26 - Update by Orlando 07-Diversity-tackled-with-R.md

Pull Request - State: closed - Opened by OrlanC over 2 years ago

#25 - Update 07-Diversity-tackled-with-R.md

Pull Request - State: closed - Opened by IvanHpina over 2 years ago

#24 - Update 07-Diversity-tackled-with-R.md

Pull Request - State: closed - Opened by DavidAlberto over 2 years ago

#23 - Update 07-Diversity-tackled-with-R.md

Pull Request - State: closed - Opened by DavidAlberto over 2 years ago

#22 - Update 05-binning.md

Pull Request - State: closed - Opened by jmvillalobos over 2 years ago

#21 - Update 05-binning.md

Pull Request - State: closed - Opened by NoeGarciaC almost 3 years ago

#20 - Create coreect FAQ and data sites from workshop overview

Issue - State: closed - Opened by nselem about 3 years ago

#19 - Introduce biom format

Issue - State: closed - Opened by nselem about 3 years ago - 1 comment

#18 - compress Quality control Workflow

Issue - State: closed - Opened by nselem about 3 years ago

#17 - Improve setup page

Issue - State: closed - Opened by nselem about 3 years ago - 2 comments

#16 - Add a Metagenomics Workshop Overview

Issue - State: closed - Opened by AbrahamAvelar about 3 years ago - 1 comment

#15 - Nanopore metagenomics can be added as a box in subsection other resources

Issue - State: closed - Opened by nselem over 3 years ago - 1 comment

#14 - MAGs /binning section needs to be developed

Issue - State: closed - Opened by nselem over 3 years ago - 2 comments

#13 - More biological contexts needs to be added in the lesson

Issue - State: closed - Opened by nselem over 3 years ago - 2 comments

#12 - 16s data could also be included in R section

Issue - State: closed - Opened by nselem over 3 years ago - 1 comment

#11 - R section needs to be expanded

Issue - State: closed - Opened by nselem over 3 years ago - 3 comments

#10 - Min max and mean in diversity analysis exercise didn't work

Issue - State: closed - Opened by AbrahamAvelar over 3 years ago - 2 comments

#9 - Update 10-OtherResources.md

Pull Request - State: closed - Opened by annajiat over 3 years ago

#8 - Add R to the remote computer

Issue - State: closed - Opened by AbrahamAvelar over 3 years ago - 1 comment

#7 - Integrate Shell lesson within the metagenomics lesson

Issue - State: closed - Opened by AbrahamAvelar over 3 years ago - 2 comments

#6 - Change name of Data Files

Issue - State: closed - Opened by AbrahamAvelar over 3 years ago - 1 comment

#5 - Break lessons that took a lot of time to teach

Issue - State: closed - Opened by AbrahamAvelar over 3 years ago - 3 comments

#4 - Create a pipeline with all commands

Issue - State: closed - Opened by nselem over 3 years ago - 4 comments

#3 - Update 09-diversity-analysis.md

Pull Request - State: closed - Opened by Bedxxe over 3 years ago

#2 - Update 07-taxonomic.md

Pull Request - State: closed - Opened by Bedxxe over 3 years ago

#1 - Update 01-background-metadata.md

Pull Request - State: closed - Opened by fabel134 over 3 years ago

GitHub / carpentries-lab/metagenomics-analysis issues and pull requests