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Thank you for this very useful tool! I have been using it for DNA metabarcoding of analysis of several markers (e.g. COI, trnl, and 16S) with eDNA samples in multiplex reactions and has proved great. …
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Hi, I am testing crabs to get a reference library of 12S. I noticed that after step 4 I got some small size sequences (for example 20 bps) and in other cases some sequences that bind only by one of th…
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Templates have been used to create the following files:
- protocol_sampling_CTD.md
- protocol_DNA_extraction_Sterivex.md
- protocol_PCR_16S_V4V5.md
- protocol_PCR_16S_V9.md
- protocol_sequencin…
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Hello,
When using CRISPRessoPooled with the --alternate_alleles parameter, what goes in the AMPLICON_NAME and AMPLICON_SEQUENCE columns of the description file? Should all alleles go in those colu…
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Options:
- [ ] Only Amplicons vs. semi-Amplicons: with only one primer hybridize due to partial sequences
- [ ] Min and max length of the amplicon
- [ ] Ta and max delta-G
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amplicon notebooks rely on platemaps generated with spreadsheets instead of the new matrix tubes + VisionMate sample accession workflow. Generate new notebook that will allow to use the new matrix tub…
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Make a decision on how to use the data from overlapping amplicons.
Right now only one is used, which is an issue if they have conflicting information, and also if only 1 pool is used and the marker …
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### Description of the bug
Hi!
I'm running the pipeline with the following pipeline:
```
nextflow run nf-core/circdna \
-r 1.0.4 \
-profile docker \
-resume \
--max_cpus 9 \
--max_memory …
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Hello- I have followed properly the instructions provided to install this pipeline-umi-amplicon. However, the installation test failed Command used:
`snakemake -j 1 -pr --configfile config.yml`
…
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This is one component of issue #375
## MIxS
```
bacteria_archaea
eukaryote
metagenome
metatranscriptome
mimag
mimarks-specimen
mimarks-survey
misag
miuvig
organelle
plasmid
virus
``…