# \#collection-shape **URL:** https://help.galaxyproject.org/tag/collection-shape/749.md [Latest](https://help.galaxyproject.org/latest.md) · [Categories](https://help.galaxyproject.org/categories.md) · [Tags](https://help.galaxyproject.org/tags.md) --- ## [FAQ: Create a Qiime2 qza artifact from a Galaxy collection in ONE STEP!](https://help.galaxyproject.org/t/faq-create-a-qiime2-qza-artifact-from-a-galaxy-collection-in-one-step/17506)
**Author:** [@jennaj](https://help.galaxyproject.org/u/jennaj)\ **Replies:** 0\ **Last updated:** [February 25, 2026, 9:06pm UTC](https://help.galaxyproject.org/t/faq-create-a-qiime2-qza-artifact-from-a-galaxy-collection-in-one-step/17506 "2026-02-25T21:06:11Z")
:partying\_face: Try the new QZA creation method! Creating a Qiime2 qza artifact :magic\_wand: directly from a Galaxy Collection 1. Create your Galaxy Collection! Single end will have the collection shape List Paired end… --- ## [Why collections?](https://help.galaxyproject.org/t/why-collections/16411)
**Author:** [@jennaj](https://help.galaxyproject.org/u/jennaj)\ **Replies:** 0\ **Last updated:** [October 21, 2025, 10:41pm UTC](https://help.galaxyproject.org/t/why-collections/16411 "2025-10-21T22:41:50Z")
Collections are one of the super-killer features of Galaxy! By Anton Nekrutenko October 21, 2025 --- ## [Recognizing paired collection for deep arg in galaxy europe server](https://help.galaxyproject.org/t/recognizing-paired-collection-for-deep-arg-in-galaxy-europe-server/18076)
**Author:** [@Varnika\_D](https://help.galaxyproject.org/u/Varnika_D)\ **Replies:** 1\ **Last updated:** [June 24, 2026, 2:52am UTC](https://help.galaxyproject.org/t/recognizing-paired-collection-for-deep-arg-in-galaxy-europe-server/18076 "2026-06-24T02:52:02Z")
I transferred Bowtie2 unaligned read pairs (fastqsanger.gz) from the us site to Europe site by exporting and importing a history. I built a paired collection but DeepARG short reads says ‘No compatible dataset pair datas… --- ## [qiime2 tools import](https://help.galaxyproject.org/t/qiime2-tools-import/12641)
**Author:** [@Raul\_Carlos\_Mainar\_J](https://help.galaxyproject.org/u/Raul_Carlos_Mainar_J)\ **Replies:** 8\ **Last updated:** [February 25, 2026, 9:22pm UTC](https://help.galaxyproject.org/t/qiime2-tools-import/12641 "2026-02-25T21:22:14Z")
Hi there, I am trying to import a collection of paired-end fastq files (374 files in total) of this type “XXXX\_S1\_L001\_R1\_001.fastq” but not sure what “type of data to import”. When trying “EMP Paired-end sequences”, … --- ## [Make.contigs in a list:paired collection](https://help.galaxyproject.org/t/make-contigs-in-a-list-paired-collection/17440)
**Author:** [@Ioanna\_Gkoni](https://help.galaxyproject.org/u/Ioanna_Gkoni)\ **Replies:** 1\ **Last updated:** [February 10, 2026, 8:32pm UTC](https://help.galaxyproject.org/t/make-contigs-in-a-list-paired-collection/17440 "2026-02-10T20:32:15Z")
Hello, I am trying to run the make.contigs commend of mothur to a list:paired collection and no matter how big or small my collection is, it crasshes due to file size load. Did you have the same problem? Do you know what… --- ## [Splittng Paired End Sequences and MultiQC of Paired Sequences](https://help.galaxyproject.org/t/splittng-paired-end-sequences-and-multiqc-of-paired-sequences/17334)
**Author:** [@luckeythesis](https://help.galaxyproject.org/u/luckeythesis)\ **Replies:** 4\ **Last updated:** [February 3, 2026, 1:34am UTC](https://help.galaxyproject.org/t/splittng-paired-end-sequences-and-multiqc-of-paired-sequences/17334 "2026-02-03T01:34:03Z")
Good day, I am a complete newbie to bioinformatics and am having a confusing time with the recent update with the fastq splitter as it no longer designates the forward and reverse sequences in separate collections as R1 … --- ## [Download and Extract reads in FASTQ format from NCBI SRA in workflow issue](https://help.galaxyproject.org/t/download-and-extract-reads-in-fastq-format-from-ncbi-sra-in-workflow-issue/16430)
**Author:** [@erdavenport](https://help.galaxyproject.org/u/erdavenport)\ **Replies:** 5\ **Last updated:** [October 27, 2025, 8:07pm UTC](https://help.galaxyproject.org/t/download-and-extract-reads-in-fastq-format-from-ncbi-sra-in-workflow-issue/16430 "2025-10-27T20:07:31Z")
Hi! I am teaching a course where we run through an RNA-seq analysis where we take one sample through multiple steps (Download using “Download and Extract reads in FASTQC format from NCBI SRA”, run FastQC, trimmomatic, ru… --- ## [Qimme2 tools import issue](https://help.galaxyproject.org/t/qimme2-tools-import-issue/16406)
**Author:** [@Eirecantinaband](https://help.galaxyproject.org/u/Eirecantinaband)\ **Replies:** 1\ **Last updated:** [October 17, 2025, 7:04pm UTC](https://help.galaxyproject.org/t/qimme2-tools-import-issue/16406 "2025-10-17T19:04:48Z")
Hi everyone, I have been provided 2 clean different files for each of my 16s results samples. They are filename.effective.fastq.gz and filename.fna.gz. Firstly, I don’t know which is best for me to analyse? I am trying… --- ## [Why can’t separate files be used in FASTP? Creating a paired end collection folder (data shapes and organization)](https://help.galaxyproject.org/t/why-can-t-separate-files-be-used-in-fastp-creating-a-paired-end-collection-folder-data-shapes-and-organization/16329)
**Author:** [@H1889](https://help.galaxyproject.org/u/H1889)\ **Replies:** 5\ **Last updated:** [October 1, 2025, 10:50pm UTC](https://help.galaxyproject.org/t/why-can-t-separate-files-be-used-in-fastp-creating-a-paired-end-collection-folder-data-shapes-and-organization/16329 "2025-10-01T22:50:57Z")
Hi. I have used FASTP in Galaxy many times and before I could select single, paired, or paired-end collection, so why can I now only use single or paired-collection? Why can’t both files (forward and reverse) be used in… --- ## [Qiime2 import troubleshooting: Retain original Illumnia file names + use simple list collection](https://help.galaxyproject.org/t/qiime2-import-troubleshooting-retain-original-illumnia-file-names-use-simple-list-collection/15889)
**Author:** [@Israa\_Cheikh](https://help.galaxyproject.org/u/Israa_Cheikh)\ **Replies:** 2\ **Last updated:** [August 8, 2025, 6:31pm UTC](https://help.galaxyproject.org/t/qiime2-import-troubleshooting-retain-original-illumnia-file-names-use-simple-list-collection/15889 "2025-08-08T18:31:09Z")
I have demultiplexed paired end reads in the following format: israa\_s1\_S1\_L001\_R1\_001.fastq.gz israa\_s1\_S1\_L001\_R2\_001.fastq.gz To match the casave 1.8 format, I changed the file names as: israas1\_L001\_R1\_001.fastq.… --- ## [Large discrepancies between processing identical files on Org vs EU site](https://help.galaxyproject.org/t/large-discrepancies-between-processing-identical-files-on-org-vs-eu-site/15265)
**Author:** [@M.r.t](https://help.galaxyproject.org/u/M.r.t)\ **Replies:** 4\ **Last updated:** [April 24, 2025, 5:49pm UTC](https://help.galaxyproject.org/t/large-discrepancies-between-processing-identical-files-on-org-vs-eu-site/15265 "2025-04-24T17:49:47Z")
Hello, I am very new to this, so forgive me if I’m missing something but I’ve come across massive discrepancies between processing the same files on the same supposed tools on the EU vs Org sites. The first issue I had … --- ## [What do these FastQC results mean?](https://help.galaxyproject.org/t/what-do-these-fastqc-results-mean/15121)
**Author:** [@Sabsida](https://help.galaxyproject.org/u/Sabsida)\ **Replies:** 4\ **Last updated:** [April 1, 2025, 12:11am UTC](https://help.galaxyproject.org/t/what-do-these-fastqc-results-mean/15121 "2025-04-01T00:11:09Z")
Dear Community, I need a bit of advice. I got RNAseq data from a collegue from a few years ago, that they never used. It is interesting for my project so wanted to have a look. Those are 7 samples from healthy humans.… --- ## [Quality Control Start Here! multQC issue and guidance?](https://help.galaxyproject.org/t/quality-control-start-here-multqc-issue-and-guidance/14914)
**Author:** [@Martyn](https://help.galaxyproject.org/u/Martyn)\ **Replies:** 1\ **Last updated:** [March 3, 2025, 5:47pm UTC](https://help.galaxyproject.org/t/quality-control-start-here-multqc-issue-and-guidance/14914 "2025-03-03T17:47:50Z")
Hi everyone, I have my fastQC files on collection in my history and want to use multQC. It is saying that there are no options available even though you can see them in my history. Can anyone offer any help or guidence? … --- ## [De-multiplex paired-end reads](https://help.galaxyproject.org/t/de-multiplex-paired-end-reads/13783)
**Author:** [@jkagle](https://help.galaxyproject.org/u/jkagle)\ **Replies:** 1\ **Last updated:** [October 30, 2024, 5:09pm UTC](https://help.galaxyproject.org/t/de-multiplex-paired-end-reads/13783 "2024-10-30T17:09:05Z")
I have the multiplexed paired-end read files from an Illumina run and I have both forward and reverse index files. I have figured out I can use barcode splitter to split the read files individually, but how do I get the … --- ## [plotCoverage bin count names](https://help.galaxyproject.org/t/plotcoverage-bin-count-names/13684)
**Author:** [@ahentges](https://help.galaxyproject.org/u/ahentges)\ **Replies:** 2\ **Last updated:** [October 29, 2024, 11:35pm UTC](https://help.galaxyproject.org/t/plotcoverage-bin-count-names/13684 "2024-10-29T23:35:27Z")
I am using the plotCoverage tool to analyze some bam files. I am using the save raw counts option so that I can get a table of per-position coverage. When I run this on single-end read alignments, the output table gives …