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459 results • Page 2 of 10
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19
votes
10
replies
1.5k
views
Forum: Pain points using commercial clouds
gpt tinybio
updated 7 months ago by ▴ 70 • written 7 months ago by ▴ 830
9
votes
6
replies
1.9k
views
6 follow
Forum: GTF files from Ensembl Releases 105 and 106 unsorted
Ensembl bug GTF
updated 7 months ago by 81k • written 17 months ago by ▴ 30
3
votes
2
replies
613
views
Forum: How to contribute to the next edition of Biostars Handbook
handbook
updated 7 months ago by 43k • written 7 months ago by ▴ 20
3
votes
6
replies
1.4k
views
6 follow
Forum: Is Bioinformatics a Professional Degree?
career degree
7 months ago by anasjamshed ▴ 120
2
votes
5
replies
944
views
6 follow
Forum: Biostar as a next generation version
meta mobile-app
updated 6 months ago by 43k • written 7 months ago by • 0
2
votes
9
replies
1.2k
views
Forum: open source projects looking for contributors
open-source
updated 7 months ago by ▴ 70 • written 7 months ago by ▴ 20
0
votes
0
replies
534
views
Forum: Recruiters: what do you expect on a junior bioinformatician?
career skills
updated 8 months ago by 43k • written 8 months ago by ▴ 20
3
votes
4
replies
1.4k
views
Forum: Discussion: Uploading terabytes of data to NCBI SRA
NCBI WGS archiving servers remote
updated 7 months ago by 141k • written 8 months ago by ▴ 130
0
votes
0
replies
562
views
Forum: I have a Master's and little experience in Bioinformatics - what would be the next best step?
career
updated 8 months ago by 43k • written 8 months ago by ▴ 10
1
vote
3
replies
762
views
Forum: Spaceranger missing spatial coordinates [Discussion]
Visium
updated 8 months ago by 141k • written 8 months ago by ▴ 550
11
votes
8
replies
1.4k
views
6 follow
Forum: How to write a review article in bioinformatics
article review
updated 7 months ago by 43k • written 8 months ago by ▴ 10
364
votes
58
replies
69k
views
44 follow
Forum: Recommend Your Favorite Bioinformatics Books
education books
updated 6 months ago by 43k • written 14.1 years ago by 100k
1
vote
2
replies
18k
views
Forum: Would you rather analyze a dataset with a strong, non-collinear batch effect, or a weak, collinear batch effect.
collinear latent batch-effect variable GLM
8 months ago by LauferVA 4.2k
0
votes
3
replies
3.8k
views
10 follow
Forum: Discussion question: Cutoff for SNP phylogeny
Phylogenetics SNP
written 16 months ago by ▴ 120
2
votes
3
replies
782
views
Forum: Purely analytic or in silico manuscripts that have significantly improved biological understanding
dry-lab
updated 9 months ago by 141k • written 9 months ago by 4.2k
0
votes
2
replies
1.3k
views
Forum: [Detailed Question] How to Normalize of Metagenomics Gene Abundances (with HMMs models)
normalization
updated 10 months ago by 10k • written 10 months ago by • 0
33
votes
23
replies
4.1k
views
8 follow
Forum: Is there a file format better suited for the era of pangenomics than the .vcf? What are its attributes?
VCF file-format genomics
updated 10 months ago by 22k • written 10 months ago by 4.2k
7
votes
8
replies
1.9k
views
Forum: Would solving many Rosalind problems show your ability for this field in job-wise?
rosalind career
10 months ago by K • 0
2
votes
3
replies
854
views
Forum: Mapping a predicted sequence to a genome
predicted map alignment sequence
updated 10 months ago by ★ 27k • written 10 months ago by • 0
0
votes
0
replies
439
views
Forum: Recommendation sought for differential exon usage of a single gene
splicing differential-exon-usage
updated 10 months ago by 43k • written 10 months ago by ▴ 10
7
votes
4
replies
1.1k
views
Forum: [Meta] Use of AI
AI Artificial-Intelligence meta ChatGPT
updated 10 months ago by 43k • written 10 months ago by 4.2k
2
votes
2
replies
590
views
Forum: Colleges
Colleges india universities
updated 10 months ago by 43k • written 10 months ago by • 0
19
votes
15
replies
2.0k
views
6 follow
Forum: Cross out line in Biostars
meta
updated 11 months ago by 43k • written 5.9 years ago by 5.3k
121
votes
33
replies
39k
views
24 follow
Forum: Where To Look For Quality Bioinformatics Short Courses And Workshops?
Courses
updated 11 months ago by ★ 2.5k • written 10.7 years ago by 11k
103
votes
42
replies
31k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 11 days ago by 22k • written 10.4 years ago by ★ 3.6k
26
votes
12
replies
7.5k
views
6 follow
Forum: Mapping God Found ‘Scientifically Dishonest’ By Anonymous Peer Reviewers
ngs
updated 11 months ago by ▴ 10 • written 10.5 years ago by ▴ 50
0
votes
2
replies
764
views
Forum: How to start in bioinformatics?
career
updated 11 months ago by 43k • written 12 months ago by • 0
4
votes
5
replies
1.4k
views
Forum: I'm looking for a mentor in Bioinformatics
mentor teaching
updated 10 weeks ago by • 0 • written 12 months ago by • 0
19
votes
14
replies
2.0k
views
7 follow
Forum: What's the general view on point & click bioinformatics for routine analyses?
ngs RNA-Seq next-gen-sequencing
12 months ago by Simon ▴ 40
10
votes
15
replies
2.1k
views
Forum: How should reference genome fasta files be distributed by UCSC?
reference-genome fasta freeze ucsc-genome-browser
updated 10 months ago by 22k • written 14 months ago by ★ 1.6k
5
votes
4
replies
1.3k
views
Forum: Best BAM viewer in 2022
sam bam
updated 10 months ago by 43k • written 17 months ago by ▴ 70
1.2k
votes
206
replies
59k
views
108 follow
Forum: What Are The Most Common Stupid Mistakes In Bioinformatics?
software
updated 10 months ago by ★ 1.4k • written 13.1 years ago by 22k
15
votes
13
replies
4.0k
views
8 follow
Forum: Does a PhD or work experience set you up better to do bioinformatics work in industry?
advice industry phd
updated 3 months ago by 3.9k • written 17 months ago by ▴ 30
4
votes
5
replies
1.3k
views
6 follow
Forum: Which Bioinformatics Master's degree is better?
career masters
updated 11 months ago by 43k • written 17 months ago by • 0
3
votes
6
replies
1.1k
views
Forum: How to become a moderator and other ways of contributing to Biostars
meta biostars
updated 11 months ago by 43k • written 18 months ago by 6.2k
3
votes
2
replies
844
views
Forum: From protein-protein interaction networks to..
workflow computational knowledge limitations
updated 10 months ago by 43k • written 22 months ago by ▴ 50
15
votes
11
replies
4.7k
views
9 follow
Forum: Methodological problems are extremely common for enrichment analysis - beware the pitfalls before you publish
GSEA DAVID enrichment-analysis -geneontology
updated 11 months ago by 43k • written 2.1 years ago by ★ 1.9k
0
votes
3
replies
922
views
Forum: Project Topics on bioinformatic
Data-analysis Coding Molecular-biology
updated 11 months ago by 43k • written 2.1 years ago by • 0
3
votes
1
reply
903
views
Forum: How to download multiple .gz files from Ensembl Protists database
wget protist ensembl
updated 9 weeks ago by ★ 1.7k • written 2.1 years ago by ▴ 840
17
votes
14
replies
3.3k
views
Forum: Asking for feedback on a Python library for computing alignments
alignment Python
updated 10 months ago by ▴ 220 • written 2.3 years ago by ▴ 60
0
votes
1
reply
765
views
Forum: What are the most important papers/methods in Genomics/Bioinformatics of 2021?
publications
updated 10 months ago by 43k • written 2.3 years ago by ★ 2.5k
12
votes
7
replies
6.9k
views
Forum: Differences between SMART-seq2, SMART-seq3, and 10x
cell smartseq UMIs single 10x
updated 26 days ago by ★ 5.8k • written 2.6 years ago by ▴ 70
0
votes
0
replies
514
views
Forum: Poll about a structured description of a tool, a pipeline
survey pipeline
updated 10 months ago by 43k • written 2.7 years ago by • 0
7
votes
20
replies
2.0k
views
Forum: NGS RNA-Seq Analysis Pipeline Tophat vs STAR
STAR RNA-Seq TopHat
updated 11 months ago by 43k • written 3.3 years ago by ▴ 10
11
votes
9
replies
2.4k
views
7 follow
Forum: Feature Selection and Dimensionality Reduction in 10X scRNA-seq data
software-error pca scRNA-seq
updated 11 months ago by 43k • written 4.3 years ago by 81k
0
votes
0
replies
695
views
Forum: where to get the site mutation rate of SARS-CoV-2?
sequence sequencing
updated 11 months ago by 43k • written 3.3 years ago by ▴ 40
6
votes
5
replies
1.6k
views
Forum: Very generally speaking, what are valid criteria to decide that a sample is an outlier?
outliers
updated 11 months ago by 43k • written 3.3 years ago by ▴ 300
7
votes
4
replies
1.2k
views
Forum: Specific question on torturing the data until it confesses
ipa gene-set-enrichment statistics
updated 11 months ago by 43k • written 3.3 years ago by ▴ 300
7
votes
3
replies
1.3k
views
Forum: Is it still recommended to avoid macOS Big Sur?
mac
updated 11 months ago by 43k • written 3.3 years ago by ▴ 210
25
votes
7
replies
1.9k
views
6 follow
Forum: What Are The Best Bioinformatics Course Materials [2020]
course teaching
updated 11 months ago by 43k • written 3.3 years ago by 8.6k
459 results • Page 2 of 10
Recent Votes
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
Answer: Ubuntu storage space is decreasing automatically
Comment: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
Answer: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
The majority of the sequences in Trinity ID do not start from start codons. Can the sequences still be used for primer design and validation?
Answer: Cellranger count error: Input FASTQ file ended prematurely
Answer: RNA seq differential expression analysis
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Recent Replies
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach by ATpoint 81k
You can, if you use RStudio via Docker, for example `bioconductor/bioconductor_docker`. I currently manage many different projects with thi…
Comment: bam merging for archaic samples by Matteo Ungaro ▴ 100
@Pierre Lindenbaum I see. So, I can actually manipulate just one single RG tag at the time with `samtools`? Which flag should I use, or sho…
Comment: bam merging for archaic samples by Pierre Lindenbaum 161k
RG tag "L9302" is missing the the BAM header. You should have something like this in the BAM header ``` @RG ID:L9302 SM:L9302 ``` may be…
Answer: Filtering sam or bam file with maximum matching region by Pierre Lindenbaum 161k
> . Is there any way to find through sam or bam file that which chromosomal position are maximum reads aligning to? samtools depth i…
Comment: Calculate Radius of Gyration [python 3] by ndm1096 • 0
Hello Franco. I am very much new with bioinformatics but I have been tasked with studying the radius of gyration of a timeseries of a prote…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach by BioinfGuru ★ 1.7k
That makes a lot more sense. Thank you.
Answer: Removing Illumina microarray probes with no expression HumanHT-12v4 by Gordon Smyth ★ 7.0k
Type ``` help("read.idat") ``` and read the example at the bottom of the page, which shows you how to set the `other$Detection` component o…
Comment: Free/open source 23andme-like analysis by swbarnes2 14k
Accurately assessing a few QC metrics is trivially easy. Assessing the significance of variants in a clinically responsible way is really…
Comment: Cellranger count error: Input FASTQ file ended prematurely by swbarnes2 14k
If _1 and _2 really are the same library, you should rename the fastqs, or make symlinks, such that they have the same sample name, but dif…
Comment: Cellranger count error: Input FASTQ file ended prematurely by ATpoint 81k
Just delete the index read files. They just take up space and will never be used.
Comment: Adding CB tag to bam file by swbarnes2 14k
Yes. Why wouldn't you use, say, AddOrReplaceReadsGroups?
Comment: Ciriquant not configuring hisat2 indexed files by Atul K. • 0
Thank you. Decreased the threads to 2 (changed the threads: 2 in the config file; but it was somehow using 4). It did run for sometime but …
Answer: GTF file from Stringtie to R Studio for either Ballgown or DESeq2 by Ram 43k
See this section on how to use tximport to import StringTie output for DESeq2 processing: https://bioconductor.org/packages/devel/bioc/vign…
Comment: how to find genes that are significantly expressed in brain cortex samples by Ram 43k
Can you explain the normalization or give me a link that describes it, please? Comparison across samples will always be caveated as RNA-seq…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach by Ram 43k
Sorry, I see how harsh I come across. It's not good practice to use multiple versions of R in the same project. I can understand legacy pro…
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