Tutorial Feedback #989
Comments
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New GTN feedback received (extended form) Which GTN tutorial did you complete?: assembly with velvet How did you use this tutorial?: I took the tutorial on my own. Usefulness: 3 Quality: 3 Length: Too short Level of detail: Not enough details If you used this material to teach, how many students/participants attended?: What did you like?: What would you change?: Please provide any feedback you have on your experience with this tutorial.: I want to use velvet for genome assembly but I am unable to find it on Galaxy. Is the application removed from galaxy? Your institution: Okayama University Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: very detailed and easy to follow, even for a complete beginner - great! What could be improved?: Tutorial: Galaxy 101 (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: very detailed and easy to follow, thank you What could be improved?: Tutorial: Introduction to Genomics and Galaxy (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 2 What did you like?: What could be improved?: Tutorial: Identification of the binding sites of the Estrogen receptor (ChIP-Seq data analysis) Note: this comment was autogenerated |
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New GTN feedback received What did you like?: What could be improved?: Tutorial: NGS data logistics (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: Well structured, easy to understand. What could be improved?: Tutorial: From peaks to genes (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: The data clean-up was thoroughly covered. Every step was well explained What could be improved?: Using the mock community. More light on rationale Tutorial: 16S Microbial Analysis with Mothur (Metagenomics) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: What could be improved?: Tutorial: From peaks to genes (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: well explained What could be improved?: maybe by adding more pictures next to the explanations? Tutorial: From peaks to genes (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 4 What did you like?: Well-structured and helpful What could be improved?: More information on the flanking region tool (how it works) Tutorial: From peaks to genes (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: Very detailed, thank you What could be improved?: Tutorial: Mapping (Sequence analysis) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: perfect step by step !!!! What could be improved?: maybe use human data ?? Tutorial: Hi-C analysis of Drosophila melanogaster cells using HiCExplorer (Epigenetics) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 4 What did you like?: Everything works with provided data and the scale is good for use in class What could be improved?: Could you provide the fragment size separating the paired ends? It would also be nice to have more info for instructors about the genome for doing additional exercises based on the assemblies. Tutorial: De Bruijn Graph Assembly (Assembly) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: İts explanatory feature What could be improved?: Tutorial: Reference-based RNA-Seq data analysis (Transcriptomics) Note: this comment was autogenerated |
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New GTN feedback received What did you like?: What could be improved?: I am doing this tutorial 09/2018 -> the step using the JBrowse tool works only (at least in my hands) with this version: (Galaxy Version 1.12.5+galaxy0) Tutorial: Genome annotation with Prokka (Genome Annotation) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: What could be improved?: Tutorial: DNA Methylation data analysis (Epigenetics) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: What could be improved?: Tutorial: De Bruijn Graph Assembly (Assembly) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 3 What did you like?: What could be improved?: Not clear that Trim Galore and FastQ are integrated into Galaxy. Uncertain how obtained 97,644 sequences after trim galore of bad data (I got 99,341). Tutorial: Quality Control (Sequence analysis) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: What could be improved?: Tutorial: Galaxy 101 (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: What could be improved?: Tutorial: Quality Control (Sequence analysis) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: What could be improved?: Tutorial: Galaxy 101 (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 4 What did you like?: The presentation of the tutorial and the practicality of it What could be improved?: The rate of update of the tutorial Tutorial: Galaxy 101 (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: I found it interesting and user friendly What could be improved?: nothing for now Tutorial: Galaxy 101 (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: makes life easy What could be improved?: very good Tutorial: NGS data logistics (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 5 What did you like?: interesting and user friendly What could be improved?: very good Tutorial: Reference-based RNAseq data analysis (long) (Transcriptomics) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 4 What did you like?: The tutorial was very interesting and easy to follow What could be improved?: Naming of the output files Tutorial: Reference-based RNA-Seq data analysis (Transcriptomics) Note: this comment was autogenerated |
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New GTN feedback received How much did you like this tutorial?: 4 What did you like?: easy to follow What could be improved?: Tutorial: Galaxy 101 (Introduction to Galaxy Analyses) Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Breve introducción a Galaxy - en español (Introduction to Galaxy Analyses) How much did you like this tutorial?: 5 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Mapping (Sequence analysis) How much did you like this tutorial?: 5 What did you like?: The important function of each tool was described clearly. The questions and answers could highlight other practical information. What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: 2: RNA-seq counts to genes (Transcriptomics) How much did you like this tutorial?: 5 What did you like?: Easy to follow What could be improved?: - Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Python - Math (Foundations of Data Science) How much did you like this tutorial?: 5 What did you like?: I think it was very straightforward and easy to follow What could be improved?: This part: Given the following variables: a = 2 b = 1 c = -1 Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Taxonomic Profiling and Visualization of Metagenomic Data (Metagenomics) How much did you like this tutorial?: 3 What did you like?: All steps are very clear and have a great explanation What could be improved?: all the datasets used in this pipeline are very poor and incomplete and there are a lot of unclassified reads and taxa so really need to improve Note: this comment was autogenerated |
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New GTN feedback received Tutorial: NGS data logistics (Introduction to Galaxy Analyses) How much did you like this tutorial?: 1 What did you like?: What could be improved?: I feel this was too advanced for an introduction. I couldn't follow as outputs were not as described. Note: this comment was autogenerated |
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New GTN feedback received Tutorial: A short introduction to Galaxy (Introduction to Galaxy Analyses) How much did you like this tutorial?: 5 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Breve introducción a Galaxy - en español (Introduction to Galaxy Analyses) How much did you like this tutorial?: 5 What did you like?: Easy and completed What could be improved?: You should try more video clips content but I think tihs tuturial is great Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Library Generation for DIA Analysis (Proteomics) How much did you like this tutorial?: 5 What did you like?: I like almost everything, nicely presented and so helpful What could be improved?: maybe more clear at first regarding what site provides what so we dont have to register several rounds Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Proteogenomics 2: Database Search (Proteomics) How much did you like this tutorial?: 3 What did you like?: What could be improved?: I went through the first tutorial, Proteogenomics 1: Database Creation. This resulted in creation of the fasta protein database file, Uniprot_cRAP_SAV_indel_translatedbed.FASTA which is used by this tutorial. When I ran the SearchGUI against this database file and the same downloaded mfg files, an empty SearchGUI archive file was generated. So I could not move onto the next steps of the tutorial. I suppose it is possible that I somehow did something wrong in the first tutorial to create the fasta file although just by looking at it it seemed reasonable and had a fair amount of data in it. I was wondering if anyone has gone through the first tutorial and the second tutorial to verify that they work. Also, it would be helpful if there was a sample input protein database file available on zenodo to complete this tutorial without having to be dependent upon the output of the first tutorial. Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Data Manipulation Olympics (Introduction to Galaxy Analyses) How much did you like this tutorial?: 4 What did you like?: il is well explained and step-by-step guided. What could be improved?: It maybe useful to have more details on the special meaning of " *, ?, ., + etc in a regular expression, maybe i just missed the information. Regarding the sort-tool based exercise i had a different answer to "Which athlete comes last by alphabet, in the most recent Olympics?" : instead of " Žolt Peto who competed in table tennis at the 2020 Summer Olympics in Tokyo. " i obtained "Zuzana Rehák Štefečeková who competed in shooting at the 2020 Summer Olympics in Tokyo". I do not understand why i get a different result and if Žolt should come last because of the "Ž" not being a "Z" ? Note: this comment was autogenerated |
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New GTN feedback received Tutorial: NGS data logistics (Introduction to Galaxy Analyses) How much did you like this tutorial?: 4 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: An Introduction to Genome Assembly (Assembly) How much did you like this tutorial?: 5 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: A short introduction to Galaxy (Introduction to Galaxy Analyses) How much did you like this tutorial?: 4 What did you like?: Clearly stated with pictures What could be improved?: Trouble shooting pages and video recording Note: this comment was autogenerated |
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New GTN feedback received Tutorial: M. tuberculosis Variant Analysis (Variant Analysis) How much did you like this tutorial?: 4 What did you like?: Very clear and well explain tutorial What could be improved?: Maybe I would suggest to put some figures to easy find some commands on galaxy Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Tree thinking for tuberculosis evolution and epidemiology (Evolution) How much did you like this tutorial?: 4 What did you like?: How to develop and analyse a phylogenetic tree What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Identifying tuberculosis transmission links: from SNPs to transmission clusters (Evolution) How much did you like this tutorial?: 4 What did you like?: Very clear tutorial What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: A short introduction to Galaxy (Introduction to Galaxy Analyses) How much did you like this tutorial?: 5 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Breve introducción a Galaxy - en español (Introduction to Galaxy Analyses) How much did you like this tutorial?: 4 What did you like?: It was very clear and detailed What could be improved?: Some of the options were not updated, or at least they show different in my browser (galaxy.ue). Specifically in the FastQC "short..." Note: this comment was autogenerated |
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New GTN feedback received Tutorial: A short introduction to Galaxy (Introduction to Galaxy Analyses) How much did you like this tutorial?: 4 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Quality Control (Sequence analysis) How much did you like this tutorial?: 5 What did you like?: What could be improved?: More examples of poor quality reads. Note: this comment was autogenerated |
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New GTN feedback received Tutorial: A short introduction to Galaxy (Introduction to Galaxy Analyses) How much did you like this tutorial?: 5 What did you like?: Very clear, providing a first glance on the main actions with Galaxy. What could be improved?: Maybe the tutorial should be updated according to new versions of web Galaxy. Also, the reason for the second renaming (as "FASTQ reads") during the creation of a workflow is not well justified. Note: this comment was autogenerated |
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New GTN feedback received Tutorial: A short introduction to Galaxy (Introduction to Galaxy Analyses) How much did you like this tutorial?: 5 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Identification of the micro-organisms in a beer using Nanopore sequencing (Metagenomics) How much did you like this tutorial?: 4 What did you like?: The step by step process is well explained What could be improved?: I as not able to comple some steps, like converting the resistance gene table to gf3 Note: this comment was autogenerated |
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New GTN feedback received Tutorial: A short introduction to Galaxy (Introduction to Galaxy Analyses) How much did you like this tutorial?: 5 What did you like?: the coherence What could be improved?: Examples in many ways to analyze Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1) (Epigenetics) How much did you like this tutorial?: 5 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Identification of somatic and germline variants from tumor and normal sample pairs (Variant Analysis) How much did you like this tutorial?: 5 What did you like?: What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: A short introduction to Galaxy (Introduction to Galaxy Analyses) How much did you like this tutorial?: 5 What did you like?: Thank you for the detailed step by step guide What could be improved?: Note: this comment was autogenerated |
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New GTN feedback received Tutorial: Identification of somatic and germline variants from tumor and normal sample pairs (Variant Analysis) How much did you like this tutorial?: 5 What did you like?: it was easy to follow What could be improved?: Note: this comment was autogenerated |
This issue will collect all feedback submitted via the feedback form at the end of each tutorial
Results have been aggregated and pro/cons per tutorial
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