# \#barcode **URL:** https://forum.qiime2.org/tag/barcode/102.md [Latest](https://forum.qiime2.org/latest.md) · [Categories](https://forum.qiime2.org/categories.md) · [Tags](https://forum.qiime2.org/tags.md) --- ## [Dual-End Barcoding for 16S rRNA Primers: Using Golay Barcodes on Both Forward and Reverse Primers](https://forum.qiime2.org/t/dual-end-barcoding-for-16s-rrna-primers-using-golay-barcodes-on-both-forward-and-reverse-primers/32696)
**Author:** [@Imam\_Rosadi](https://forum.qiime2.org/u/Imam_Rosadi)\ **Replies:** 4\ **Last updated:** [March 10, 2025, 11:17am UTC](https://forum.qiime2.org/t/dual-end-barcoding-for-16s-rrna-primers-using-golay-barcodes-on-both-forward-and-reverse-primers/32696 "2025-03-10T11:17:35Z")
Hello, Our lab is working on developing a 16S rRNA sequencing protocol, and we would like to incorporate barcodes on both the forward and reverse primers. Currently, we are following the EMP protocol, where only the for… --- ## [Are barcode fastqfiles necessary for analysis?](https://forum.qiime2.org/t/are-barcode-fastqfiles-necessary-for-analysis/31651)
**Author:** [@nadavlisha](https://forum.qiime2.org/u/nadavlisha)\ **Replies:** 4\ **Last updated:** [October 15, 2024, 1:26pm UTC](https://forum.qiime2.org/t/are-barcode-fastqfiles-necessary-for-analysis/31651 "2024-10-15T13:26:47Z")
hey, I have downloaded all the raw American Gut Project data and want to start analysis on the data. I saw that I got many barcode files, and their corresponding reverse and forward fastq files. If I do analysis on the… --- ## [Questions on demultiplexing using](https://forum.qiime2.org/t/questions-on-demultiplexing-using/29661)
**Author:** [@Minh\_Tr\_n](https://forum.qiime2.org/u/Minh_Tr_n)\ **Replies:** 5\ **Last updated:** [March 26, 2024, 5:19pm UTC](https://forum.qiime2.org/t/questions-on-demultiplexing-using/29661 "2024-03-26T17:19:44Z")
Hello, I'm new to Bioinformatics and this is the 1st time I'm using Qiime2. What I'm working on is demultiplexing a paired-end raw data set. Here is an example of what my barcodes.fastq.gz have: @M01522:221:000000000-BR… --- ## [Pyrosequence work in Qiime2 (Barcode)](https://forum.qiime2.org/t/pyrosequence-work-in-qiime2-barcode/29543)
**Author:** [@You\_y\_Choi](https://forum.qiime2.org/u/You_y_Choi)\ **Replies:** 10\ **Last updated:** [March 15, 2024, 4:37am UTC](https://forum.qiime2.org/t/pyrosequence-work-in-qiime2-barcode/29543 "2024-03-15T04:37:27Z")
Hello, experts. I apologize for missing the reply to my last question. Sorry about that. Here is the link for reference: Pyrosequence work in Qiime2. As mentioned in my earlier question, "I followed this amazing tutori… --- ## [Error: Barcode fastq file:input error. fastq format required](https://forum.qiime2.org/t/error-barcode-fastq-file-input-error-fastq-format-required/27068)
**Author:** [@ltunney](https://forum.qiime2.org/u/ltunney)\ **Replies:** 2\ **Last updated:** [July 14, 2023, 8:23pm UTC](https://forum.qiime2.org/t/error-barcode-fastq-file-input-error-fastq-format-required/27068 "2023-07-14T20:23:31Z")
Hello everyone. I am fairly new to DNA sequencing and Qiime but I am working on a project using Qiime2 on the EDGE bioinformatics interface. I've ran this sequence before with no issues but now I get an error saying "Bar… --- ## [Casava files of paired end reads](https://forum.qiime2.org/t/casava-files-of-paired-end-reads/22527)
**Author:** [@Muhammad\_Zeeshan\_Akr](https://forum.qiime2.org/u/Muhammad_Zeeshan_Akr)\ **Replies:** 7\ **Last updated:** [March 23, 2022, 10:05am UTC](https://forum.qiime2.org/t/casava-files-of-paired-end-reads/22527 "2022-03-23T10:05:59Z")
Hi all, I am really sorry for silly question but i am very new to NGS and microbiota analysis. I am in learning phase and would like to get expertise in this field. I received paired end fastq files of casava (R1 and R… --- ## [Fastq files from casava](https://forum.qiime2.org/t/fastq-files-from-casava/22528)
**Author:** [@Muhammad\_Zeeshan\_Akr](https://forum.qiime2.org/u/Muhammad_Zeeshan_Akr)\ **Replies:** 8\ **Last updated:** [March 23, 2022, 8:57am UTC](https://forum.qiime2.org/t/fastq-files-from-casava/22528 "2022-03-23T08:57:09Z")
Hi all, I received paired end fastq files of casava (R1 and R2) from illumina but not barcode file. Now i have fastq files of R1 and R2 as well as metadata file. I am not sure either my reads are already demultiplexed o… --- ## [Request for help with Barcode or Metafile](https://forum.qiime2.org/t/request-for-help-with-barcode-or-metafile/20093)
**Author:** [@Azospirillum871](https://forum.qiime2.org/u/Azospirillum871)\ **Replies:** 1\ **Last updated:** [July 5, 2021, 8:34am UTC](https://forum.qiime2.org/t/request-for-help-with-barcode-or-metafile/20093 "2021-07-05T08:34:34Z")
Hi, I am new to Qiime2. I do not know how to create a barcode.fastq.gz file or a metadata file. I just got some paired-end sequences that my advisor gave me after we ran the Miseq together. Just the two reads per well no… --- ## [Need to remove barcodes not in my mapping file](https://forum.qiime2.org/t/need-to-remove-barcodes-not-in-my-mapping-file/18743)
**Author:** [@dadaria](https://forum.qiime2.org/u/dadaria)\ **Replies:** 1\ **Last updated:** [March 10, 2021, 3:34pm UTC](https://forum.qiime2.org/t/need-to-remove-barcodes-not-in-my-mapping-file/18743 "2021-03-10T15:34:09Z")
Hello, I have imported my raw data (forward sequences and barcodes) using the single-end EMP format. I am attempting to demultiplex using a mapping file whose barcodes are not aligning correctly to the barcodes in the e… --- ## [qiime2 demuxed sequences / barcode](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118)
**Author:** [@hey](https://forum.qiime2.org/u/hey)\ **Replies:** 5\ **Last updated:** [January 20, 2021, 5:55pm UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118 "2021-01-20T17:55:19Z")
i have 20 samples and use cutadapt demux-paired to spilt data the barcode information like this but actually i only get 10 samples from this software like this and why ? thanks --- ## [cutadapt demux-paired demuxes some but not all samples](https://forum.qiime2.org/t/cutadapt-demux-paired-demuxes-some-but-not-all-samples/17132)
**Author:** [@mchimenti](https://forum.qiime2.org/u/mchimenti)\ **Replies:** 1\ **Last updated:** [October 19, 2020, 8:01pm UTC](https://forum.qiime2.org/t/cutadapt-demux-paired-demuxes-some-but-not-all-samples/17132 "2020-10-19T20:01:11Z")
Hello: I am attempting to demultiplex paired-end, 300 bp reads from a MiSeq run with dual-indexed data. Barcodes are in the reads. I checked with 'grep' and they are the first 8 nt in both R1 and R2 reads. They are n… --- ## [Barcodes problem in demultiplexing with q2-cutadpt](https://forum.qiime2.org/t/barcodes-problem-in-demultiplexing-with-q2-cutadpt/12062)
**Author:** [@zArctander](https://forum.qiime2.org/u/zArctander)\ **Replies:** 1\ **Last updated:** [October 21, 2019, 10:49pm UTC](https://forum.qiime2.org/t/barcodes-problem-in-demultiplexing-with-q2-cutadpt/12062 "2019-10-21T22:49:56Z")
Hello! When I use q2-cutadpt demux-paired with 6 bases long barcodes, sequences are gathered in just one or two samples, and other samples hold fewer sequences. demux-odd.qzv (298.2 KB) I guess it's because the barcod… --- ## [How to handle barcodes with different lengths](https://forum.qiime2.org/t/how-to-handle-barcodes-with-different-lengths/8405)
**Author:** [@Muhammad\_Arslan](https://forum.qiime2.org/u/Muhammad_Arslan)\ **Replies:** 1\ **Last updated:** [February 17, 2019, 6:27pm UTC](https://forum.qiime2.org/t/how-to-handle-barcodes-with-different-lengths/8405 "2019-02-17T18:27:00Z")
Hi all, I am trying to validate my metadata file but having this issue of different barcode length. I have tried to follow the help file as well but as far as i understood, barcode length should be similar. But in my ca… --- ## [What are the best barcoding - multiplexing strategies?](https://forum.qiime2.org/t/what-are-the-best-barcoding-multiplexing-strategies/3815)
**Author:** [@mshenton](https://forum.qiime2.org/u/mshenton)\ **Replies:** 2\ **Last updated:** [April 19, 2018, 2:20am UTC](https://forum.qiime2.org/t/what-are-the-best-barcoding-multiplexing-strategies/3815 "2018-04-19T02:20:55Z")
Hi Qiime2 forum folks, I considering launching a new project including 16s amplicon studies, using hundreds of samples from rhizosphere soils. If you had to start from scratch, which barcoding - multiplexing strategies… --- ## [Some troubles with data importation](https://forum.qiime2.org/t/some-troubles-with-data-importation/2305)
**Author:** [@zhenhaoluo](https://forum.qiime2.org/u/zhenhaoluo)\ **Replies:** 4\ **Last updated:** [December 27, 2017, 3:17pm UTC](https://forum.qiime2.org/t/some-troubles-with-data-importation/2305 "2017-12-27T15:17:52Z")
Hi, Hello, there's some troubles with my data importation. There are about more than 100 samples in my dataset, and I have sequenced them in two run, which some of the samples have the same barcode, e.g. Sample 1 in Run… --- ## [Golay Barcodes vs. Nextera Sequencing Adapter Barcodes for Mapping File](https://forum.qiime2.org/t/golay-barcodes-vs-nextera-sequencing-adapter-barcodes-for-mapping-file/2270)
**Author:** [@slh277](https://forum.qiime2.org/u/slh277)\ **Replies:** 1\ **Last updated:** [December 18, 2017, 11:13pm UTC](https://forum.qiime2.org/t/golay-barcodes-vs-nextera-sequencing-adapter-barcodes-for-mapping-file/2270 "2017-12-18T23:13:23Z")
Hi, thank you all so much for your continued support and help!!! I am having trouble determining how to make my metadata mapping file, for paired-end reads. The company used dual-indexing Nextera Adapters and didn't spe… --- ## [New to Qiime2 Mismatched sequence ids:](https://forum.qiime2.org/t/new-to-qiime2-mismatched-sequence-ids/2050)
**Author:** [@kulandai1](https://forum.qiime2.org/u/kulandai1)\ **Replies:** 6\ **Last updated:** [December 12, 2017, 3:58am UTC](https://forum.qiime2.org/t/new-to-qiime2-mismatched-sequence-ids/2050 "2017-12-12T03:58:08Z")
HI I am new to Qiime2 i have just installed qiime2 and it tried atacama tutorial and it work well. but when i used my sample data i found error in demux emp-paried end. Anyone can help me in this i have past the commad … --- ## [Getting started with paired end, no barcodes](https://forum.qiime2.org/t/getting-started-with-paired-end-no-barcodes/1819)
**Author:** [@mamillerpa](https://forum.qiime2.org/u/mamillerpa)\ **Replies:** 2\ **Last updated:** [November 13, 2017, 10:38pm UTC](https://forum.qiime2.org/t/getting-started-with-paired-end-no-barcodes/1819 "2017-11-13T22:38:21Z")
I have been using Qiime 1 off and on for a long time. I'm trying to make the switch to Qiime 2 now. I have completed the Q2 moving picture tutorial. I generally work with paired-end Illumina reads, without barcodes, i… --- ## [Importing multiplexed paired-end data with separated barcode sequence files](https://forum.qiime2.org/t/importing-multiplexed-paired-end-data-with-separated-barcode-sequence-files/1469)
**Author:** [@Mehrbod\_Estaki](https://forum.qiime2.org/u/Mehrbod_Estaki)\ **Replies:** 5\ **Last updated:** [October 23, 2017, 11:49pm UTC](https://forum.qiime2.org/t/importing-multiplexed-paired-end-data-with-separated-barcode-sequence-files/1469 "2017-10-23T23:49:17Z")
I'm trying to import multiplexed 16S paired end MiSeq data however the barcode sequence files are not the way I typically see them, as in the barcode files are not combined as per the Q2 tutorials. I have: R1.fastq \<- …