#biostars — Public Fediverse posts

#alphagenome: what is the 'best' variant of interest ? I asked #biostars : https://www.biostars.org/p/9618109/

#alphagenome: what is the 'best' variant of interest ? I asked #biostars : https://www.biostars.org/p/9618109/

#alphagenome: what is the 'best' variant of interest ? I asked #biostars : https://www.biostars.org/p/9618109/

#alphagenome: what is the 'best' variant of interest ? I asked #biostars : https://www.biostars.org/p/9618109/

#alphagenome: what is the 'best' variant of interest ? I asked #biostars : https://www.biostars.org/p/9618109/

"Q: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 2025 ?" https://www.biostars.org/p/9616981/

#academia #bioinformatics #biostars

I asked #biostars : "Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the system., exiting."
https://www.biostars.org/p/9614740/

#bioinformatics #parabricks #NVIDIA #haplotypecaller #gatk #gpus

I asked #biostars : "Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the system., exiting."
https://www.biostars.org/p/9614740/

#bioinformatics #parabricks #NVIDIA #haplotypecaller #gatk #gpus

I asked #biostars : "Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the system., exiting."
https://www.biostars.org/p/9614740/

#bioinformatics #parabricks #NVIDIA #haplotypecaller #gatk #gpus

I asked #biostars : "Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the system., exiting."
https://www.biostars.org/p/9614740/

#bioinformatics #parabricks #NVIDIA #haplotypecaller #gatk #gpus

I asked #biostars : "Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the system., exiting."
https://www.biostars.org/p/9614740/

#bioinformatics #parabricks #NVIDIA #haplotypecaller #gatk #gpus

"AliNe is a pipeline written in Nextflow that aims to efficiently align reads against a reference genome using the tools of your choice." (via #biostars ) https://github.com/Juke34/AliNe

The GIAB genomic stratifications resource for human reference genomes(via #biostars) https://www.nature.com/articles/s41467-024-53260-y "Here we describe a set of “stratifications,” which are BED files that define distinct contexts throughout the genome. We define these for GRCh37/38 as well as the new T2T-CHM13 reference, adding many new hard-to-sequence regions which are critical for understanding performance as the field progresses"

asked #biostars : "finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame (uORF)"" https://www.biostars.org/p/9595035/ #uORF #mass #masspec #spectrometry #translation #UTR #ORF

VCF2PCACluster: a simple, fast and memory-efficient tool for principal component analysis of tens of millions of SNPs https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-024-05770-1 (via #biostars)

":F*up Night style events for #Bioinformatics ? " https://www.biostars.org/p/9591237/#9591239 #biostars "Have you ever made such an embarrassing bioinformatics mistake that you never dared to tell a soul about -- except maybe over drinks or other intoxicating substance?"

I asked a question about #diffbind in #biostars : https://www.biostars.org/p/9590852/

> Clinical bioinformatics nowadays have a lot of plenty tools like xxxx so I do not plan to waste time of my students with archaic command line pipelines.

😵 😂 😱

https://www.biostars.org/p/9590807/#9590813

#bioinformatics #biostars #education

asked #biostars : https://www.biostars.org/p/9585840/ #nfcore #fetchngs #sra #sratools

asked #biostars : https://www.biostars.org/p/9585840/ #nfcore #fetchngs #sra #sratools

asked #biostars : https://www.biostars.org/p/9585840/ #nfcore #fetchngs #sra #sratools

asked #biostars : https://www.biostars.org/p/9585840/ #nfcore #fetchngs #sra #sratools

asked #biostars : https://www.biostars.org/p/9585840/ #nfcore #fetchngs #sra #sratools

#biostars answer "Extract of no. shared gene names in disease-disease association though API from Disgenet Database" https://www.biostars.org/p/9579776/#9579780 #sparql #rdf

asked : "CDS phase 0,1,2 in GFF format" https://www.biostars.org/p/9572773/ #biostars #gff3 #gff #bioinformatics I don't understand the spec.

https://ai.tinybio.cloud/experiment-generator "Today we are publically releasing a new large language model tool for brainstorming scripts based on the types of samples you have access to. The main use case that we want to solve is the cold start problem when you're staring at a blank screen trying to figure out what to run next. For each pipeline, before it is generated, you can also edit the software stack used so that you can incorporate your feedback before the script is generated." (via #biostars) #ai

https://github.com/CMU-SAFARI/AirLift AirLift is a tool that updates mapped reads from one reference genome to another. (via #biostars) #genome
#bioinformatics #mapping #bam

It looks like the authors didn't use a #workflow #manager ?

... then I said to myself, in french ...

"PUTAIN MAIS C'EST QUI CE CON ?"

https://www.biostars.org/p/9558883/#9558884

#sorrynotsorry

#biostars #nextflow #nfcore #bioinformatics

asked #biostars https://www.biostars.org/p/9554494/ #UKBiobank #dnanexus #wdl "UKBiobank / DNANexus. Working with WDL and directories."

reminder: my email is not #biostars

#bioinformatics

asked #biostars "htslib/c what is the correct way to use bgzf_thread_pool ?" #C #samtools #htskib #fastq https://www.biostars.org/p/9551841/

asked #biostars "htslib/c what is the correct way to use bgzf_thread_pool ?" #C #samtools #htskib #fastq https://www.biostars.org/p/9551841/

asked #biostars "htslib/c what is the correct way to use bgzf_thread_pool ?" #C #samtools #htskib #fastq https://www.biostars.org/p/9551841/

asked #biostars "htslib/c what is the correct way to use bgzf_thread_pool ?" #C #samtools #htskib #fastq https://www.biostars.org/p/9551841/

asked #biostars "htslib/c what is the correct way to use bgzf_thread_pool ?" #C #samtools #htskib #fastq https://www.biostars.org/p/9551841/

#biostars answer: https://www.biostars.org/p/9550377/#9550382 "speeding up bcftools view" using #nextflow

https://github.com/Technion-Kishony-lab/quibbler (via #biostars) "Quibbler is a toolset for building highly interactive, yet reproducible, transparent and efficient data analysis pipelines. Quibbler allows using standard Python syntax to process data through any series of analysis steps, while automatically maintaining connectivity between downstream results and upstream raw data sources."

"Forum: #BioStars and #ChatGPT" https://www.biostars.org/p/9547384/

excluderanges: exclusion sets for T2T-CHM13, GRCm39, and other genome assemblies https://www.biorxiv.org/content/10.1101/2022.11.21.517407v1 (via #biostars ) #bed #assembly

https://github.com/kcleal/gw "GW is a fast #browser for genomic sequencing data (#bam/.cram format), used directly from the terminal." #ngs #bioinformatics #cli #visualization (via #biostars )

https://github.com/koesterlab/datavzrd "A tool to create visual and interactive HTML #reports from collections of #CSV/#TSV tables." (via #biostars ) #visualization

https://www.biorxiv.org/content/10.1101/2022.10.16.512451v1 A Deep-learning based RNA-seq Germline Variant Caller #rnaseq #calling #variant #vcf ( via #biostars )

#biostars Q: "I must to design a #vaccine and use #bioinformatics on it."#kamoulox https://www.biostars.org/p/9544884/ 🤔

https://42basepairs.com/ "A file #browser made for #genomics. A better way to explore genomics data in the cloud. Currently supports public buckets in #Amazon S3, Google Cloud Storage, and Cloudflare R2." via #biostars