Hello all
I am trying to analysis my microbiome data and my data is about fish microbiome from skin and gut, so I have 300 fish but I did the skin and gut microbiome on different chips with same barcode. Now I have two fasq files with sames barcodes, what I did I used diffeenet sample name (like s1 for skin fish 1, and g1 for gut fish1) and I did the split library with QIIME 1. Now I have two seq fna and I open the saq fna files and it seems everything is fine. My question is, can I combine the two seq fna file and then use qiime 2 for further analysis? If yes please could send me the command that I need to follow? I used Ion Torrent s5 for sequencing and my variable region was V5-V6.
Hello All
I am trying to import my seq fna files from qiime 1 to qiime 2 but I am getting below error. Any help would really be appreciated. I also read this page (https://docs.qiime2.org/2020.6/tutorials/otu-clustering/) but did not help me too much.
(qiime2-2020.6) glier_ubuntu@glierubuntu-Precision-7920-Tower:~/Desktop/Shared_Folder/Swab_samples/Split_Library_Output$ qiime tools import --input-path sequences.fna --output-path sequences.qza --type ‘SampleData[sequences]’
Traceback (most recent call last):
File “/home/glier_ubuntu/miniconda3/envs/qiime2-2020.6/lib/python3.6/site-packages/q2cli/builtin/tools.py”, line 158, in import_data
view_type=input_format)
File “/home/glier_ubuntu/miniconda3/envs/qiime2-2020.6/lib/python3.6/site-packages/qiime2/sdk/result.py”, line 213, in import_data
output_dir_fmt = pm.get_directory_format(type_)
File “/home/glier_ubuntu/miniconda3/envs/qiime2-2020.6/lib/python3.6/site-packages/qiime2/sdk/plugin_manager.py”, line 313, in get_directory_format
% semantic_type)
TypeError: Semantic type SampleData[sequences] does not have a compatible directory format.
An unexpected error has occurred:
Semantic type SampleData[sequences] does not have a compatible directory format.
