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1,000 results • Page 7 of 20
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66
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29
replies
16k
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15 follow
Forum: Fundamentals Of Designing Biological Databases?
database
updated 15 months ago by 43k • written 13.5 years ago by ▴ 130
66
votes
21
replies
6.9k
views
18 follow
Forum: Is there anyone who was a pure biologist?
next-gen
updated 14 months ago by 43k • written 10.1 years ago by ▴ 100
65
votes
15
replies
15k
views
Tutorial: Which human reference genome should I use?
assembly genome alignment
updated 11 months ago by 43k • written 5.6 years ago by 16k
65
votes
35
replies
20k
views
17 follow
Which Dna Compression Algorithms Are Actually Used?
dna
updated 20 months ago by 161k • written 13.0 years ago by ▴ 270
65
votes
57
replies
8.4k
views
12 follow
Forum: Bioinformatics Mobile App
android genome iphone mutations
updated 2.3 years ago by 43k • written 9.5 years ago by ▴ 20
65
votes
3
replies
296k
views
Understanding up and down regulated genes from LOG2 foldchange or foldchange
protein gene-expression RNA-Seq
updated 14 months ago by 43k • written 10.0 years ago by ▴ 960
65
votes
30
replies
35k
views
13 follow
Remove mitochondrial reads from BAM files
awk samtools BAM RNA-Seq
updated 2.1 years ago by 43k • written 9.3 years ago by ▴ 900
65
votes
24
replies
17k
views
14 follow
Mapping Snps To Pathways
snp genotyping pathway gene enrichment
updated 6 months ago by 43k • written 14.2 years ago by 161k
65
votes
12
replies
59k
views
7 follow
Recommended cutoff for FDR - 0.05 or 0.1
RNA-Seq R
updated 3.1 years ago by • 0 • written 7.7 years ago by ▴ 180
65
votes
34
replies
27k
views
20 follow
Phylogenetic Analysis Of Whole Genomes
phylogenetics tree
updated 2.2 years ago by 43k • written 13.8 years ago by ▴ 130
65
votes
27
replies
7.5k
views
14 follow
Forum: What is the reason for most software errors in Bioinformatics according to you?
software-error blast sequencing SNP R
updated 13 months ago by 43k • written 8.1 years ago by ▴ 110
65
votes
10
replies
3.4k
views
6 follow
Incentive For Learning Emboss
emboss
updated 10 months ago by 43k • written 13.1 years ago by 11k
65
votes
2
replies
31k
views
Why Is Stranded Rna Seq Better Than Unstranded?
rna-seq
11.1 years ago by Irsan ★ 7.8k
65
votes
26
replies
19k
views
13 follow
Forum: Macosx For Bioinformatics?
linux
updated 14 months ago by 43k • written 10.4 years ago by 11k
64
votes
24
replies
3.1k
views
12 follow
Forum: How much I must feel useless?
machine-learning Programming statistics
updated 11 months ago by 43k • written 5.6 years ago by ▴ 80
64
votes
13
replies
13k
views
11 follow
Tutorial: Tutorial (How to analyze) on Whole Exome sequencing. Common Errors. Best Practices.
muTect GATK Picard Exome
updated 2.3 years ago by 43k • written 9.5 years ago by ★ 2.4k
64
votes
24
replies
42k
views
12 follow
How to extract unique mapped results from Bowtie2 bam results?
alignment
updated 16 months ago by 43k • written 10.0 years ago by ▴ 170
64
votes
24
replies
57k
views
20 follow
Download All The Bacterial Genomes From Ncbi
ncbi
updated 2.3 years ago by 43k • written 11.3 years ago by ▴ 290
64
votes
5
replies
7.3k
views
10 follow
Tutorial: Informatics of RNA-Seq.
next-gen RNA-Seq
updated 19 months ago by 43k • written 8.8 years ago by 12k
64
votes
23
replies
4.9k
views
11 follow
What Is More Relevant In Bioinformatics: Databases Or Algorithms
database algorithm subjective
updated 13.3 years ago by 2.3k • written 13.4 years ago by ★ 1.0k
64
votes
19
replies
21k
views
12 follow
What Ngs Read Simulators Are Available For Paired-End Data?
next-gen sequencing fastq simulation paired
updated 18 months ago by 43k • written 13.7 years ago by 12k
64
votes
26
replies
14k
views
7 follow
Tutorial: Parallel processing in R
biocparallel mclapply foreach R
updated 14 months ago by 43k • written 6.7 years ago by 88k
64
votes
8
replies
8.3k
views
7 follow
Forum: Isaac Asimov Accurately Predicts Woes Of Bioinformatician
bioinformatician
updated 14 months ago by 43k • written 11.0 years ago by 20k
63
votes
20
replies
5.6k
views
9 follow
Do You Think I Should Study Computer Science?
subjective
updated 13.0 years ago by ★ 2.6k • written 13.6 years ago by ▴ 90
63
votes
15
replies
12k
views
12 follow
Popular Sites For Asking Bioinformatics Questions?
updated 10.1 years ago by ★ 1.3k • written 13.6 years ago by ★ 4.4k
63
votes
17
replies
37k
views
7 follow
how to remove multiallelic from VCF
SNP
updated 15 months ago by 43k • written 9.0 years ago by ▴ 550
63
votes
18
replies
8.2k
views
9 follow
What Programming Language Is Best To Learn For Getting Into Web-Based Bioinformatics?
programming webservice
updated 13.3 years ago by 4.5k • written 13.8 years ago by ▴ 130
63
votes
16
replies
43k
views
11 follow
How To Analyze Imputed Gwas Data
gwas r snp imputation plink
updated 3.9 years ago by ▴ 70 • written 13.2 years ago by 2.8k
63
votes
8
replies
44k
views
6 follow
Why Do You Need To Use Cdna For Rna-Seq?
rna-seq cdna
updated 7.7 years ago by • 0 • written 11.6 years ago by ▴ 460
63
votes
27
replies
27k
views
18 follow
Data Too Big To Be Stored In Memory: Common Options
python
updated 14 months ago by 43k • written 11.5 years ago by ▴ 720
63
votes
15
replies
5.0k
views
9 follow
What Are The Bioinformatics-Related Aliases Or Functions In Your Bashrc
bash
updated 12.0 years ago by ★ 2.5k • written 12.0 years ago by 24k
63
votes
12
replies
13k
views
8 follow
Best Papers On Computational Biology From 2010
literature papers subjective
updated 13.2 years ago by 18k • written 13.3 years ago by ▴ 160
63
votes
9
replies
3.9k
views
Forum: Should The "Post Closing" Option Exist? Vote Now!
meta
updated 14 months ago by 43k • written 11.0 years ago by 100k
63
votes
22
replies
65k
views
16 follow
How To Convert Gencode Gtf Into Bed Format ?
gtf bed
updated 17 months ago by • 0 • written 11.5 years ago by ★ 1.5k
63
votes
28
replies
4.1k
views
11 follow
Forum: Bioinformatics analyses & errors: need for better post-publication tools?
next-gen RNA-Seq
updated 13 months ago by 43k • written 8.0 years ago by ★ 1.2k
63
votes
11
replies
16k
views
9 follow
Forum: Web Based Interactive Resources To Learn Programming And/Or Bioinformatics
programming
updated 14 months ago by 43k • written 10.9 years ago by 20k
62
votes
17
replies
6.8k
views
14 follow
C And Fortran Programming Language
programming
updated 4.9 years ago by ▴ 140 • written 12.3 years ago by ▴ 50
62
votes
95
replies
20k
views
8 follow
How to extract the list of genes from TCGA CNV data
TCGA CNV genes
updated 15 months ago by ▴ 10 • written 6.1 years ago by ▴ 260
62
votes
14
replies
196k
views
9 follow
How To Deal With Duplicate Row Names Error In R
r
updated 12 months ago by 11k • written 11.3 years ago by ▴ 910
62
votes
16
replies
34k
views
18 follow
Job: Bioinformatics Jobs You Can Do From Home?
python education
updated 15 months ago by 43k • written 13.6 years ago by ▴ 290
62
votes
29
replies
8.1k
views
14 follow
Best bioinfo one-liners?
linux
updated 16 months ago by 43k • written 9.0 years ago by 4.1k
62
votes
30
replies
8.5k
views
14 follow
Online Resources For Mouse Research
mouse online database genetics genomics
updated 7.6 years ago by ★ 1.2k • written 12.3 years ago by 4.9k
62
votes
16
replies
39k
views
8 follow
Get rs number based on position
ucsc mysql snp
updated 5.5 years ago by 11k • written 12.9 years ago by ▴ 660
62
votes
3
replies
33k
views
Paired-end reads - what is what?
RNA-Seq
updated 16 months ago by 43k • written 8.9 years ago by ▴ 240
62
votes
14
replies
22k
views
13 follow
Tools For Visualizing Overlap Between Go Terms
gene visualization
updated 14.0 years ago by 20k • written 14.0 years ago by 5.0k
61
votes
6
replies
9.5k
views
Tutorial: Minimum Standards For Bioinformatics Command Line Tools
command-line
updated 14 months ago by 43k • written 10.8 years ago by 9.7k
61
votes
16
replies
8.1k
views
14 follow
Forum: Rust or C++, what to learn after Go for high-performance bioinformatics tools?
library
updated 16 months ago by ★ 1.3k • written 3.6 years ago by 8.5k
61
votes
15
replies
11k
views
9 follow
How To Decide Which Software To Use For Building Automated Ngs Analysis Pipeline
next-gen sequencing pipeline sequencing
updated 11.9 years ago by 22k • written 13.1 years ago by ▴ 300
61
votes
51
replies
22k
views
9 follow
Tool: Efficiently process (view, analize, clip ends, convert, demultiplex, dereplicate) SFF/FastQ files
sff sequence fastq next-gen
updated 10 months ago by 43k • written 10.1 years ago by ▴ 790
61
votes
14
replies
20k
views
13 follow
Why is Hadoop not used a lot in bio-informatics?
hadoop
updated 14 months ago by 43k • written 9.6 years ago by ★ 5.3k
1,000 results • Page 7 of 20
Recent Votes
Comment: How to calculate coverage of Nanopore long read data?
Comment: Overlapping Ranges within Granges object
Answer: Difference between Genotype 0|1 and 1|0 in VCF file?
Answer: how to keep reads in a fasta file based on a seq id list in R?
Answer: The total expressed genes in RNA-Seq data
C: Re-arrange conditions in Seurat
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Recent Replies
Comment: How to calculate coverage of Nanopore long read data? by Arton • 0
Thank you! I eventually used the information generated by three tools (samtools coverage+ mosdepth + NanoPlot).
Comment: Alphaphold 3 pLDDT coloring scheme in chimerax? by mbrav005 • 0
Thank you Sir! you are right my model is not very good. Do You know how I can improve the scores. Also I am able to color the structure by …
Comment: Polish a large genome with Pilon by sansan_96 ▴ 90
..........
Comment: Overlapping Ranges within Granges object by ntsopoul ▴ 60
you are on to something… if I use reduce to find the “overlaping regions” in a secon GRanges object, what do I do next?
Comment: Using ggplotly in R by jen ▴ 10
Thank you Jared for your response. I took a look at the documentation you provided and am trying my best to follow along, but can't seem to…
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred by Juke34 8.6k
Right I heard there is an issue since Perl v5.36. You may have better luck using conda. Or the best way is to use the container. Or downgra…
Answer: Alphaphold 3 pLDDT coloring scheme in chimerax? by Mensur Dlakic ★ 27k
pLDDT scores are stored in the so-called B-factor column in PDB files. Below the `File` ribbon select `Molecule Display` and click on `b-fa…
Comment: Genome Visualization Tools by dlera.lozano ▴ 10
Thank you so much
Answer: Doubt about the process of annotation, detection, identification and classificat by Mensur Dlakic ★ 27k
Depends on the context. `TE detection` and `TE identification` could mean the same thing if they refer to presence/absence of TEs. `TE iden…
Comment: featureCounts output summary assigned value higher than uniquely mapped reads fr by Ram 43k
Please accept your own answer to mark the post as solved.
Comment: RSeQC : infer_experiment.py Error: Could not retrieve index file by Ram 43k
A small educational note: if an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accep…
Comment: RSeQC : infer_experiment.py Error: Could not retrieve index file by Prawesh • 0
thanks, it's working now.
Answer: Genome Visualization Tools by GenoMax 142k
@cmdcolin has a great list here: https://github.com/cmdcolin/awesome-genome-visualization
Answer: RSeQC : infer_experiment.py Error: Could not retrieve index file by Trivas ★ 1.8k
You need to have indexed your bam/sam file using `samtools index`
Answer: Using ggplotly in R by jared.andrews07 ★ 16k
The simple answer is to plot it natively with plotly rather than use `ggplotly`. See [this stackoverflow answer](https://stackoverflow.com/…
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