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A: Ensembl ID gene length GC content

Answer: Different results between clusterProfiler and Enrichr

Comment: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d

Answer: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d

The Biostar Herald for Monday, November 04, 2024

t2t human reference genome for RNA-seq

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Popular Question to somatohadidas • 0

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Comment: SnakeMake error: by aUser ▴ 40

Thank you, let me simplify it first, then I will update you. I have changed all the tabs to spaces, (1 tab == 4 spaces), but it did not s…

Comment: SnakeMake error: by aUser ▴ 40

Thank you for the help, I have uploaded the complete script, fom top to bottom. My error is not identation, but "unterminated string". Afte…

Comment: Duplication removal of RNA-seq fastq files during the process of annotation by Abieskawa • 0

No, they are from different tissues and development stage, like gills, brain, etc, 27 samples (54 files because of pair-end) in total. I ha…

Comment: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d by GenoMax 146k

> I’m thinking of using a job array As long as the storage that your cluster is using can support the necessary bandwidth this should be…

Comment: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d by kalavattam ▴ 270

Thank you—do you mean something like this in a single job submission (where `threads=4` or something like that)? ``` #!/bin/bash # Use G…

Answer: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d by Dave Carlson ★ 1.9k

Assuming your Slurm cluster is configured like the one I use, where each job gets exclusive access to one or more compute nodes, this would…

Comment: The Biostar Herald for Monday, November 04, 2024 by Dunois ★ 2.7k

> it would be nice if everyone left that toxic platform but in the meantime, The platform formerly known as Twitter is hardly appropriate …

Comment: CUT&RUN: ECOLI SPIKEIN by Ram 44k

Please don't use ALL CAPS - it's the online equivalent of yelling. I've fixed it for you this time/

Comment: different numbers of genes for WGCNA and Differential expression by allingt • 0

What are the filtering steps you take in each method and what are your thresholds? I always find it helpful to visualise or take a note of…

Comment: Combining two closely related bacterial annotated genomes to analyze as one pool by GenoMax 146k

> but what I would like to do is pool my A909 and COH1 data together for analysis since they are share the majority of their genomes. I a…

Answer: Perform DESeq2 with One factor with three levels vs Two factor with two levels by swbarnes2 14k

With only three kinds of samples, I don't think two factors makes sense. Two factors would be like, having multiple genotype backgrounds w…

Comment: The Biostar Herald for Monday, November 04, 2024 by cmdcolin ★ 3.9k

just FYI, anyone that doesn't have an twitter/X login can no longer view x.com threads. it would be nice if everyone left that toxic platfo…

Answer: nf-core/rnaseq, problem with ensembl reference by Kai • 0

Hello, This was something that I came across fairly recently. It's somewhat misleading, as it does appear to be an issue with the transcr…

Comment: Which Tool is Better for Genome Polishing Using Illumina and Nanopore Reads: Pol by Dunois ★ 2.7k

If you've already polished via `Flye` (during the assembly) I doubt it make sense to do long read polishing again after the fact. I'd just …

Comment: The Biostar Herald for Monday, November 04, 2024 by Dunois ★ 2.7k

> The second states that the inflated FDRs reported in the first paper is an artifact of incorrect data generation and that the Wilcoxon te…

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