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1,000 results • Page 3 of 20
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116
votes
18
replies
39k
views
14 follow
What Are The Best Bioinformatics Course Materials And Videos (Available Online)?
education online
updated 6.4 years ago by ▴ 20 • written 12.2 years ago by ★ 1.3k
116
votes
35
replies
7.6k
views
18 follow
Forum: Is Biostar Killing The Bioinformatics Core?
core biostars
updated 7 months ago by 40k • written 10.5 years ago by 21k
115
votes
29
replies
31k
views
11 follow
PCA in a RNA seq analysis
RNA-Seq pca
updated 4.8 years ago by 28k • written 5.9 years ago by ▴ 330
115
votes
25
replies
67k
views
14 follow
Is My Bam File Sorted ?
bam next-gen sequencing sort
updated 7 months ago by ▴ 10 • written 12.7 years ago by 157k
115
votes
21
replies
112k
views
14 follow
When To Choose Python Over Perl (And Vice Versa)?
python perl comparison
updated 11.5 years ago by ▴ 30 • written 11.9 years ago by ★ 2.6k
114
votes
7
replies
27k
views
7 follow
What Makes One Probability Distribution Better For Rna-Seq Than Another?
rna
updated 12.6 years ago by ▴ 140 • written 12.6 years ago by 21k
113
votes
53
replies
5.9k
views
16 follow
Forum: Middle author, but not first author projects. How would you approach this?
authorship career-development
updated 3 months ago by 40k • written 4.5 years ago by ▴ 170
112
votes
24
replies
45k
views
17 follow
Workflow Or Tutorial For Snp Calling?
snp samtools alignment next-gen sequencing
updated 13 months ago by 40k • written 12.4 years ago by ▴ 480
110
votes
37
replies
7.4k
views
13 follow
Bioinformatics Career Survey 2011/2012
career
updated 7 months ago by 40k • written 12.0 years ago by 157k
110
votes
56
replies
41k
views
23 follow
Gene Fusion Detection: Rna-Seq Data
rna-seq next-gen sequencing fusion
updated 12 months ago by 40k • written 11.3 years ago by ▴ 380
108
votes
45
replies
83k
views
30 follow
How To Extract A Sequence From A Big (6Gb) Multifasta File ?
fasta
updated 12 months ago by ▴ 40 • written 11.2 years ago by ▴ 320
107
votes
27
replies
26k
views
12 follow
Why You Need Perl/Python If You Know R/Shell [Ngs Data Analysis]
python next-gen
updated 20 months ago by 40k • written 11.4 years ago by 11k
106
votes
23
replies
21k
views
16 follow
Forum: How Did You Learn Good Practice In Bioinformatics/Computational Biology?
bioinformatics
updated 6 months ago by 40k • written 9.6 years ago by ▴ 590
105
votes
31
replies
87k
views
18 follow
Best Way To Merge A Many Thousand Small Bam Files Into One Big Bam File?
bam picard samtools merge
updated 14 months ago by 40k • written 12.2 years ago by ★ 5.1k
105
votes
26
replies
40k
views
23 follow
How To Create Mutation Diagram In R Or In Any Tools?
mutation domain r
updated 7 days ago by 11k • written 10.7 years ago by ▴ 810
105
votes
72
replies
15k
views
17 follow
Digesting Fasta Sequences Into A Set Of Smaller Sequences
code fasta sequence codegolf
updated 5.0 years ago by 11k • written 13.2 years ago by 11k
105
votes
21
replies
20k
views
19 follow
Why Should I Use Galaxy ?
galaxy workflow
6.4 years ago by Pierre Lindenbaum 157k
105
votes
46
replies
12k
views
13 follow
Forum: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
epigenetics
updated 6 months ago by 40k • written 10.1 years ago by ★ 1.1k
105
votes
27
replies
14k
views
14 follow
Is There Such A Thing As A Ucsc Api?
ucsc python comparative api
updated 2.3 years ago by ★ 1.6k • written 12.9 years ago by 2.3k
104
votes
6
replies
24k
views
6 follow
Tutorial: Creating workflows with snakemake and conda
workflow snakemake conda
updated 6 months ago by 40k • written 5.1 years ago by 16k
104
votes
12
replies
76k
views
7 follow
Bedtools Compare Multiple Bed Files?
bedtools intersect
updated 11 months ago by 40k • written 11.9 years ago by ★ 1.7k
103
votes
20
replies
29k
views
16 follow
What Wetlab Techniques Does A Bioinformatician Need To Be Able To Perform, If Any?
education meta
updated 12.5 years ago by ★ 1.6k • written 12.5 years ago by 3.2k
102
votes
19
replies
17k
views
15 follow
How Does A Bioinformatics Scientist Document His/Her Work?
workflow
updated 7 months ago by 40k • written 11.3 years ago by ▴ 830
102
votes
44
replies
8.3k
views
22 follow
What Are Numbers Every Bioinformatician Should Know?
knowledge career
updated 7 months ago by 40k • written 10.1 years ago by 24k
102
votes
30
replies
60k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene enrichment
updated 3 months ago by 40k • written 13.6 years ago by ★ 1.0k
102
votes
81
replies
27k
views
17 follow
Duplicates on Illumina
duplicates illumina
updated 13 months ago by 134k • written 6.7 years ago by ★ 1.9k
100
votes
6
replies
59k
views
6 follow
Insert Size And Fragment Size ?
23 months ago by Nicolas Rosewick 10k
100
votes
38
replies
29k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 26 days ago by 21k • written 9.9 years ago by ★ 3.6k
100
votes
15
replies
104k
views
15 follow
Convertion Of Gff3 To Gtf
gtf gff
updated 6 months ago by ▴ 20 • written 11.3 years ago by 12k
100
votes
12
replies
37k
views
14 follow
Best Software For Detection Of Somatic Mutations From Matched Tumor:Normal Ngs Data
somatic-mutation variant-calling SNV
updated 2.0 years ago by 40k • written 11.5 years ago by ★ 2.8k
99
votes
8
replies
28k
views
8 follow
Tutorial: Guide to TCGA data
cancer RNA-Seq clinical TCGA
updated 5 months ago by 40k • written 7.6 years ago by ★ 1.1k
99
votes
32
replies
105k
views
21 follow
How To Split A Bam File By Chromosome
bam split chromosome
updated 6 weeks ago by • 0 • written 11.3 years ago by ▴ 390
99
votes
16
replies
76k
views
15 follow
How Much Coverage Do We Need For An Rna-Seq Experiment?
rna-seq coverage
8.8 years ago by Obi Griffith 20k
99
votes
44
replies
22k
views
33 follow
Best Free Text Editor For All Popular Languages (R, Python, Perl Etc..)
text r perl python
updated 6.1 years ago by ★ 2.5k • written 11.6 years ago by ★ 1.5k
99
votes
16
replies
31k
views
18 follow
Tutorial: Heatmaps in R
heatmap R
updated 6 months ago by 40k • written 7.1 years ago by 26k
99
votes
24
replies
16k
views
16 follow
Workflow management software for pipeline development in NGS
pipeline workflow
updated 20 months ago by 40k • written 8.9 years ago by ▴ 310
99
votes
21
replies
8.3k
views
14 follow
Forum: How Has Bioinformatics Improved Over Time?
bioinformatics
updated 7 months ago by 40k • written 10.7 years ago by ▴ 370
98
votes
9
replies
120k
views
11 follow
How To Merge Two Fastq.Gz Files?
merge fastq
updated 17 months ago by ▴ 40 • written 10.0 years ago by ▴ 750
98
votes
41
replies
5.1k
views
17 follow
Forum: I am really pissed off by the bioinformatics software world. Do/can we have a better solution?
software-error next-gen-sequencing
updated 5 months ago by 40k • written 7.1 years ago by ▴ 510
98
votes
12
replies
50k
views
6 follow
Ensembl-Ids Vs. Entrez-Ids
ensembl entrez gene
updated 2.5 years ago by ▴ 10 • written 11.7 years ago by ▴ 420
97
votes
35
replies
24k
views
16 follow
Disease Associated Snps
snp gwas database
updated 9.7 years ago by • 0 • written 13.3 years ago by ★ 1.5k
97
votes
23
replies
32k
views
15 follow
Is Tophat The Only Mapper To Consider For Rna-Seq Data?
bwa tophat rna-seq
updated 16 months ago by 40k • written 10.7 years ago by ▴ 330
97
votes
26
replies
9.9k
views
15 follow
Do You Trust Bio-Xxx Projects ?
biopython bioperl biojava subjective
updated 12.7 years ago by 11k • written 12.7 years ago by ★ 2.2k
97
votes
27
replies
81k
views
21 follow
Extract Sub-Set Of Regions From Vcf File
vcf tabix genome filter
updated 4 months ago by • 0 • written 11.3 years ago by ▴ 820
97
votes
19
replies
91k
views
12 follow
How To Get The Sequence Of A Genomic Region From Ucsc?
sequence ucsc fasta
updated 13 months ago by 40k • written 13.6 years ago by 28k
96
votes
26
replies
30k
views
15 follow
What Methods Do You Use For In/Del/Snp Calling?
sequencing short aligner snp
updated 9.9 years ago by 20 • written 13.5 years ago by 157k
95
votes
25
replies
32k
views
11 follow
Tutorial: Fastq Quality Control Shootout
quality qc trimming fastq
updated 7 months ago by 40k • written 11.0 years ago by 98k
95
votes
5
replies
53k
views
Difference between Hard Clip and Soft Clip in Samtools CIGAR string
samtools clipped-reads soft-clip bam hard-clip
updated 21 months ago by 40k • written 9.1 years ago by ★ 2.5k
94
votes
31
replies
38k
views
17 follow
What Is The Quickest Algorithm For Range Overlap?
python alignment next-gen sequencing database
updated 18 months ago by 40k • written 13.1 years ago by ▴ 280
93
votes
105
replies
39k
views
25 follow
Tutorial: Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
1000genomes PLINK PCA
updated 6 months ago by 40k • written 5.1 years ago by 86k
1,000 results • Page 3 of 20
Recent Votes
A: In Seurat, How Do nCount_RNA Differ from nFeature_RNA?
How to identify 16s sequences from binning data(contigs)?
geom_signif() uses t-test to compare between more than 3 groups... Isn't this wrong?
Answer: Filter transcription factors
Comment: Calculation of TMB on gene level
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool?
Comment: ATAC-seq troubleshoot - Just Noise
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Recent Replies
Comment: geom_signif() uses t-test to compare between more than 3 groups... Isn't this wr by RM123 ▴ 10
Hello Dariober, That seems like a good solution, however I'm pretty new to R. Could you tell me how I can do that?
Comment: how to create a loop in R by Nicolas Rosewick 10k
Not really a bioinformatics related question. Start by looking at R tutorial, there is plenty of them online e.g. : https://www.statmethods…
Comment: Violin plot (Monocle 3) - Troubleshooting by fracarb8 ★ 1.2k
You did not add the screenshot.
Answer: BED files by Alex Reynolds 35k
Generically via `bedmap`: ``` bedmap --echo --echo-map --count exome.bed annotations.bed > answer.bed ``` The `annotations.bed` fil…
Comment: geom_signif() uses t-test to compare between more than 3 groups... Isn't this wr by dariober 14k
It seems to me that anova followed by HSD is a more sensible approach than applying independent t-tests. Granted this is the first time I s…
Comment: BED files by barslmn ★ 1.8k
I am guessing you want the annotation files. https://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/annotation/GRCh38_latest/refseq_identifiers/
Comment: Filter human transcription factors by Alex Reynolds 35k
Curious how redundant these TFs are. Jeff Vierstra has done some analysis on this to simplify model sets: https://www.vierstra.org/resource…
Comment: Read block operation failed with BAM file by Alex Reynolds 35k
https://github.com/samtools/htslib/pull/1676 patches a seek issue in `htslib` (upon which `samtools` and `pysam` depend)
Comment: Merging the filename with tsv files for master file by barslmn ★ 1.8k
Could you add samples from your files and your expected output.
Comment: Download an example of fully-imputed VCF files ? by barslmn ★ 1.8k
Check out the 1000 genomes project. https://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20130502/
Comment: obtaining circular RNAs' sequences from circBase by Barry Digby ★ 1.2k
Sorry my mistake! it’s been a minute since I’ve used these sites. Yes that it is common place, what is the goal of your analysis using th…
Comment: gene correlations in between two groups by ATpoint 76k
Use specialized software to analyse CRISPR/RNAi data, such as MAGeCK.
Comment: gene correlations in between two groups by edus_bioinfo ▴ 40
To be more clear, I have RNAi data from depmap with different cell lines and I separated them into two groups according to their EGFR mutat…
Comment: ATAC-seq troubleshoot - Just Noise by ATpoint 76k
You have reads, so sequencing is obviously fine. This is how the banding should look: https://kb.10xgenomics.com/hc/article_attachments/360…
Comment: Program for Overlapping DMRs (Differentially Methylated Regions) Between Groups by Basti ★ 1.7k
Do not use excel for bioinformatics purposes, using R you could use GRanges objects to find overlaps between your regions : https://www.bio…
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