https://seqera.io/multiqc_config_wizard
#MultiQC Configuration Wizard
"this tool helps you create a custom multiqc_config.yaml configuration file. Edit the form on the left, or paste an existing config into the editor on the right. Each option is checked against the schema; status badges and filters let you narrow in on what's set, broken, or unrecognised. "
RE: https://mstdn.science/@multiqc/116602059486637406
Had a lot of fun hacking with this over the past few days (it went through multiple variations!)
Thanks to Vlad for doing the initial refactoring work under the hood in #MultiQC and wiring up Pydantic, and starting the first version of config wizard 🎉
Another quality of life improvement is that we now have a #JSONschema via @pydantic for #MultiQC configuration files 🎉
This has been added to schemastore.org so that config files in #VSCode & other IDEs automatically get integrated error checking as you type, see https://docs.seqera.io/multiqc/getting_started/config#json-schema-validation
Did you see, #MultiQC v1.28 went out a few days ago!
There are a handful of release highlights for this version, but perhaps the most exciting is that .gif, .webp and .tiff files are now supported for #CustomContent - you can finally put your favourite gifs into reports! Just name them *_mqc.gif
We're really excited to hear what folks make of the new #MultiQC functionality. Give it a try now with v1.27 and check out the documentation at https://docs.seqera.io/multiqc/ai
MultiQC v1.27 was released yesterday. It includes one major new feature:
=== ✨ AI summaries ✨ ===
LLMs are a natural next step for helping scientists understand large datasets. @multiqc now has built-in integration with #Seqera AI as well as #OpenAI and #AnthropicAI 🤖
The premise is fairly simple:
#MultiQC builds prompts with sample data and sends these to LLMs to get summaries.
This can be done at report-generation time and also *interactively* on-demand when reading the report.
And finally a bunch of core improvements! #Python 3.13 now officially supported, and 3.8 dropped. Tooltips, improved memory efficiency, properly sorted samples and strings, default settings for @cursor_ai editor and more!
This is a PR for telseq https://github.com/zd1/telseq . For now it just put the value LENGTH_ESTIMATE in the "general statistics" table. TelSeq is a software that estimates telomere leng...
It looks like #multiqc exports TSV files as UTF-8-BOM (byte order mark) https://community.seqera.io/t/unicode-characters-utf8-bom-in-tsv-export-samtools-flagstat-dp-tsv/1502
I cannot read this tsv in #RStats , the columns are shifted. I tried:
read.csv("samtools-flagstat-dp.tsv", header = TRUE, sep="\t", fileEncoding = "UTF-8-BOM")
I’ve been given a one-page html multiqc (v1.23) report and I exported the samtools-flags table as TSV. It looks like the output file is encoded as an unicode UTF-8-BOM file. $ head -n1 samtools-flagstat-dp.tsv | cut -f1 | file - /dev/stdin: Unicode text, UTF-8 (with BOM) text $ head -n1 samtools-flagstat-dp.tsv | cut -f1 | hexdump -C 00000000 ef bb bf 53 61 6d 70 6c 65 0a |...Sample.| 0000000a is it a bug or is it a feature 🙂 ? Asking because when I try ...
Pierre Lindenbaum
Phil Ewels
MultiQC
