SeqFu toolkit @SeqFu2

Mingling sequences in Fasta and Fastq formats ~ Plus other #bioinformatics tips for NGS analyses from the command line telatin.github.io/seqfu2/ Joined November 2021

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SeqFu toolkit @SeqFu2

a year ago

SeqFu 1.22.0 is out, with some minor improvements and updates. It's codenamed #EBAME9 because it features a new `--anvio` mode in "seqfu cat" github.com/telatin/seqfu2…

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SeqFu toolkit @SeqFu2

a year ago

What if SeqFu had an #Anvio shortcut? You could reformat FASTA file 50X faster

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SeqFu toolkit @SeqFu2

a year ago

SeqKit 2 is now described in a new paper! It's great to see this great program growing. Inspiring! onlinelibrary.wiley.com/doi/full/10.10…

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SeqFu toolkit @SeqFu2

a year ago

We got 100 stars, thanks a million! github.com/telatin/seqfu2

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Did you know that fu-index allows you to extract lane and run information from Illumina datasets? This can be useful when splitying by run (e.g. when running DADA2 or prevent batch effect) telatin.github.io/seqfu2/utiliti…

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SeqFu toolkit @SeqFu2

2 years ago

Microsoft wants to buy us, but then they would make `SeqFu (work or school)` and `SeqFu (new)` available through their app store...

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Michael Eisen @mbeisen

2 years ago

Complain all you want about peer review @FrontiersIn, but its current manifestation is the logical extension of a toxic, dysfunctional and irrational publishing culture that treats papers as currency and continues to propagate the lie that "peer reviewed" means "valid".

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SeqFu toolkit @SeqFu2

2 years ago

🥖 Freshly baked: Fasten by @lskatz was just published in @JOSS_TheOJ. Of course, it's a fast FASTQ manipulation toolkit, written in Rust. UNIX pipes provided. Bring your own dataset :)

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Ben WoOdcroft @wwood

2 years ago

Metagenome taxonomy profilers usually ignore unknown species. SingleM is an accurate profiler which doesn't, even detecting phyla with no MAGs. We applied it to 250,000 metagenomes- in environmental samples 75% lack a genome/MAG (abundance-weighted). A 🧵biorxiv.org/content/10.110…

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SeqFu toolkit @SeqFu2

2 years ago

Thanks! >1_1 frame=+0 start=0 tot=3 MERRYCHRISTMASANDAHAPPYNEWYEAR with SeqFu ORF telatin.github.io/seqfu2/utiliti…

Ensembl @ensembl

2 years ago

Thanks! >1_1 frame=+0 start=0 tot=3 MERRYCHRISTMASANDAHAPPYNEWYEAR with SeqFu ORF telatin.github.io/seqfu2/utiliti…

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SeqFu toolkit @SeqFu2

2 years ago

Hey #Miniconda users, `conda-libmamaba-solver` is default solver since 23.10, so stop installing mamba (Or use #micromamba straight away! 😜)

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SeqFu toolkit @SeqFu2

2 years ago

Have a nice weekend, folks! Keep your #HPC clusters busy over the weekend with your #bioinformatics analyses 🙃

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SeqFu toolkit @SeqFu2

2 years ago

Thanks for the GitHub stars, I just realise they are slowly growing. Can we hit the 128 🌟 (2^7)? Thanks :)

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andrea telatin @telatin

2 years ago

A new #SeqFu release directly from the Gambia! Bugfix, slight improvement to fu-orf (1.20.1) And moved the building stack to nim 2.0 Unfortunately, bioconda recipe won't work on macOS for the latest version... you can get up to 1.20 on mac until this gets fixed

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SeqFu toolkit @SeqFu2

2 years ago

Also this year, we had the opportunity to share some #SeqFu stickers at #EBAME8 with @EvelienAdri, @HannahVPye and @telatin. Every single sticker is honoured...