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114,007 results • Page 4 of 2281
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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 24 months ago by 41k • written 9.3 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 20 months ago by 41k • written 13.3 years ago by ▴ 280
94
votes
16
replies
22k
views
15 follow
Are we tricking ourselves with batch effect correction?
combat batch-effect sva
updated 10 months ago by ▴ 20 • written 8.5 years ago by ★ 3.0k
93
votes
50
replies
15k
views
17 follow
Forum: Fda Sends A Warning Letter To 23Andme - Personal Genomics Service Marketing To Be Discontinued
personal-genomics 23andMe
updated 9 months ago by 41k • written 10.0 years ago by 99k
93
votes
18
replies
66k
views
12 follow
Sequence length from Fasta
fasta
updated 11 months ago by 41k • written 9.1 years ago by ▴ 80
93
votes
21
replies
23k
views
13 follow
What Are The Advantages/Disadvantages Of One-Based Vs. Zero-Based Genome Coordinate Systems
coordinates genome
updated 9.0 years ago by 20 • written 12.7 years ago by 18k
93
votes
32
replies
32k
views
26 follow
Linux Distros Best Suited For Bioinformatics?
linux
written 11.9 years ago by ▴ 150
93
votes
19
replies
58k
views
18 follow
What Is A Good Phylogenetic Tree Display Program For Large Data Sets?
phylogenetics-tree
updated 5 months ago by 41k • written 13.2 years ago by ★ 2.6k
92
votes
46
replies
11k
views
28 follow
Best Language For Introductory Programming Course From Within An Introduction Course On Bioinformatics.
programming subjective
updated 9 months ago by 41k • written 12.4 years ago by 3.2k
92
votes
20
replies
28k
views
13 follow
Is There Any R Or R / Bioconductor Package That Can Make Circular Plots Like Perl / Circos
r visualization
updated 18 months ago by 41k • written 11.8 years ago by ★ 1.5k
91
votes
21
replies
51k
views
13 follow
Should We Remove Duplicated Reads In Rna-Seq ?
rna-seq read
updated 10.0 years ago by ▴ 250 • written 11.1 years ago by ▴ 270
91
votes
50
replies
50k
views
16 follow
PCA plot from read count matrix from RNA-Seq
RNA-Seq pca
updated 2.1 years ago by ▴ 10 • written 6.1 years ago by ▴ 210
91
votes
25
replies
60k
views
18 follow
Best Practices/Softwares To Calculate Ka/Ks Ratio
kaks selection software
updated 15 months ago by 53k • written 12.8 years ago by 3.4k
91
votes
10
replies
107k
views
11 follow
Best Way To Do Pathway Analysis Of A Set Of Genes?
protein genes pathway analysis function
updated 11.7 years ago by ★ 2.6k • written 11.7 years ago by ★ 1.0k
91
votes
20
replies
19k
views
15 follow
Forum: Publications for individualized medicine in cancer by whole genome, exome or transcriptome sequencing
N-of-one WGS RNA-Seq next-gen Exome
updated 14 months ago by 41k • written 9.6 years ago by 20k
90
votes
26
replies
38k
views
22 follow
Extracting Sequence From A 3Gb Fasta File
sequence retrieval fasta perl
updated 5.9 years ago by • 0 • written 13.5 years ago by ▴ 260
90
votes
48
replies
31k
views
29 follow
Tutorial: Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm rna-seq bioconductor
updated 5 weeks ago by 41k • written 10.1 years ago by ★ 7.8k
90
votes
19
replies
31k
views
12 follow
Tutorial: Machine Learning For Cancer Classification - Part 1 - Preparing The Data Sets
microarray bioconductor expression classification
updated 9 months ago by 41k • written 10.1 years ago by 20k
90
votes
44
replies
59k
views
28 follow
Tool to generate proportional Venn Diagrams?
visualization
updated 19 months ago by 41k • written 12.6 years ago by ★ 3.4k
89
votes
31
replies
13k
views
23 follow
Best Graphics Gallery Or Blogs For Bioinformatics Use
graphs visualization genomics
updated 16 months ago by 41k • written 11.8 years ago by ★ 1.5k
89
votes
12
replies
20k
views
9 follow
What Do Different Bioinformatics Positions Mean?
career general
updated 4 weeks ago by 41k • written 13.7 years ago by ★ 1.6k
88
votes
22
replies
84k
views
14 follow
Tutorial: How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
bcftools samtools htslib
updated 5 months ago by • 0 • written 5.4 years ago by ▴ 580
88
votes
24
replies
9.3k
views
14 follow
Project Euler Equivalent For Bioinformatics?
online
updated 6.8 years ago by 20 • written 13.4 years ago by ▴ 520
88
votes
32
replies
8.9k
views
11 follow
Forum: Vintage / unconventional pictures for Bioinformatics
history picture
updated 20 months ago by 41k • written 9.1 years ago by 158k
88
votes
24
replies
5.3k
views
10 follow
Forum: How To Be Helpful As A Biostar Moderator/Editor?
biostars
updated 9 months ago by 41k • written 10.8 years ago by 1.9k
88
votes
36
replies
38k
views
15 follow
1000 Genomes Ld Calculation
genome linkage gwas
updated 9.8 years ago by ▴ 970 • written 13.2 years ago by ★ 3.4k
87
votes
37
replies
50k
views
20 follow
Venn/Euler Diagram Of Four Or More Sets
r
updated 21 months ago by 41k • written 10.4 years ago by ▴ 110
87
votes
25
replies
51k
views
21 follow
How To Split A Multiple Fasta
fasta split
updated 22 months ago by 41k • written 13.3 years ago by ▴ 470
87
votes
11
replies
18k
views
8 follow
Good Gwas Papers / Resources
gwas literature snp
updated 13.4 years ago by 16k • written 13.4 years ago by 24k
86
votes
12
replies
54k
views
9 follow
What are chimeric reads?
sequence
updated 22 months ago by 41k • written 9.1 years ago by ▴ 300
86
votes
29
replies
9.4k
views
9 follow
Forum: What is the future of EMBL-EBI (and European bioinformatics in general) in case of a 'Brexit'?
EU brexit EBI politics
updated 8 months ago by 41k • written 7.5 years ago by 53k
85
votes
19
replies
42k
views
17 follow
How To Assess The Quality Of An Assembly? (Is There No Magic Formula?)
assembly quality next-gen
updated 22 months ago by ▴ 10 • written 10.9 years ago by ▴ 470
85
votes
49
replies
9.5k
views
31 follow
Which Application Is Truly Missing In Bioinformatics?
subjective general
updated 4 weeks ago by 41k • written 13.7 years ago by 3.4k
85
votes
2
replies
57k
views
6 follow
Tutorial: How To Ask Good Questions On Technical And Scientific Forums
how-to
updated 9 months ago by 41k • written 10.4 years ago by 11k
85
votes
16
replies
92k
views
9 follow
Number of mapped reads from BAM file
bam sam reads mapping
updated 12 months ago by ▴ 50 • written 8.7 years ago by ★ 2.7k
84
votes
21
replies
20k
views
16 follow
Tutorial: Gene Set Enrichment Analysis
microarray enrichment RNA-Seq GSEA
updated 9 months ago by 41k • written 3.1 years ago by 3.1k
84
votes
22
replies
4.2k
views
12 follow
Forum: is fortran still used in bioinformatics?
FORTRAN R
updated 9 months ago by 41k • written 4.5 years ago by ▴ 180
84
votes
29
replies
30k
views
20 follow
Tutorial: How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor GenVisR Graphics R
updated 4 months ago by • 0 • written 7.7 years ago by 20k
84
votes
36
replies
18k
views
13 follow
Forum: Benchmark - Comparison of Different NGS Mappers
mRNA-Seq benchmark NGS-mapper
updated 21 months ago by 41k • written 9.0 years ago by 10k
83
votes
34
replies
17k
views
22 follow
Tutorial: Enrichment Analysis, Clustering and Scoring with pathfindR
enrichment R pathway active-subnetwork
updated 6 months ago by • 0 • written 5.5 years ago by ★ 1.3k
83
votes
30
replies
6.3k
views
18 follow
Forum: Optimal design for bioinformatics "lab" space?
design lab-space
updated 17 months ago by 41k • written 8.7 years ago by 18k
83
votes
20
replies
19k
views
17 follow
How Do Pathway Databases Compare?
pathway database subjective
updated 4 months ago by ▴ 30 • written 13.1 years ago by ▴ 470
82
votes
13
replies
40k
views
7 follow
Ti/Tv Ratio Confirms Snp Discovery. Is This A General Rule?
snp snp
updated 3.3 years ago by 20 • written 12.9 years ago by ▴ 210
82
votes
11
replies
29k
views
10 follow
Qiime Vs Mothur : Why Use One Over The Other?
metagenomics
updated 7.2 years ago by • 0 • written 9.8 years ago by ▴ 370
82
votes
32
replies
7.3k
views
13 follow
Forum: Shall We Go Back To Stackexchange?
meta
updated 9 months ago by 41k • written 11.0 years ago by ★ 3.6k
82
votes
19
replies
13k
views
8 follow
Future Directions In Bioinformatics
subjective career
updated 9 months ago by 41k • written 13.1 years ago by ★ 1.5k
81
votes
8
replies
8.3k
views
6 follow
Tutorial: Current Topics in Genome Analysis 2014 (collection of educational lectures)
workshop lectures genomics training
updated 9 months ago by 41k • written 9.5 years ago by 19k
81
votes
39
replies
7.0k
views
11 follow
News: State Of Biostar - Future Directions (January 2013)
biostars
updated 9 months ago by 41k • written 10.9 years ago by 99k
81
votes
26
replies
12k
views
17 follow
Appropriate Podcasts For A Bioinformatician?
subjective
updated 6 weeks ago by 41k • written 13.7 years ago by 13k
81
votes
23
replies
12k
views
10 follow
Transform A Pipeline Of R Scripts Into A Web Application
webservice web pipeline galaxy
updated 19 months ago by 41k • written 13.3 years ago by 28k
114,007 results • Page 4 of 2281
Recent Votes
Comment: gatk SelectVariants is giving dupilicate allele error while extracting SNPs out
Answer: How to query 1000 genomes project VCF files for specific regions without downloa
Answer: Issue softclipping reads when they belong and don't belong to a common amplicon
Answer: Issue softclipping reads when they belong and don't belong to a common amplicon
Answer: how to remove multiple columns from a file in R
Answer: how to remove multiple columns from a file in R
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Comment: SQL request from NCBI metadata and stat_analysis tables by marie.harmel • 0
Thank you for your answer but unfortunately I tried it and it makes the same kind of ouptut as mine, with multtiple new (false) lines (spl…
Comment: Normalization of RNA captureSeq data (<20 genes captured) by ATpoint 78k
What is the question exactly? With only 20 genes you basically **must** use the spike-ins as that few genes do not really allow to normaliz…
Comment: Building reference dbSNP file using WGS samples by analyst ▴ 10
Dear [Brian][1] I realized that problem is with callvariants.sh script because when I called variants using freebayes I did not find aforem…
Comment: gatk SelectVariants is giving dupilicate allele error while extracting SNPs out by analyst ▴ 10
Its bbmap tool callvariants.sh. I think you are right because I did not get such error when I called variants through freebayes.
Answer: Efficient way of calculating the number of mismatches between two sets of sequen by j.gleixner • 0
Since all your sequences have the same length (say M) and you are only looking concerned with hamming distance you can encode your sequence…
Comment: Where to download excel file to include major human disease, prevalence and inci by GenoMax 136k
ChatGPT says Disease Prevalence Approximate Number of Cases (Worldwide) Cardiovascular Diseases High Over 17 million deaths annual…
Comment: Where to download excel file to include major human disease, prevalence and inci by Pierre Lindenbaum 158k
using wikidata: https://query.wikidata.org/sparql?query=%0ASELECT%20%3Fitem%20%3FitemLabel%20%3FitemDescription%20%3Fprevalence%20%3Fdoid%0…
Comment: Opinion on miRNA pipeline by ju_ra • 0
Thank you very much! I see you decided to go for Bowtie as aligner. Do you see any issue in using STAR (as a splice aware reader technicall…
Answer: How to avoid missannotated GO terms? by Elisabeth Gasteiger ★ 2.3k
Please contact the UniProt helpdesk whenever you find such annotations, especially in these cases where the GO evidence/source tag says "Un…
Comment: gatk SelectVariants is giving dupilicate allele error while extracting SNPs out by Pierre Lindenbaum 158k
again, it's a problem with the variant caller, which is ?
Comment: gatk SelectVariants is giving dupilicate allele error while extracting SNPs out by analyst ▴ 10
Not only opposite case but same case nucleotides are also present in vcf fle. ![enter image description here][1] [1]: /media/images/4…
Comment: gatk SelectVariants is giving dupilicate allele error while extracting SNPs out by analyst ▴ 10
Yes [Pierre][1] there is lower case **g** in **REF** and upper case **G** in **ALT** field. My question is that why variant caller is calli…
Answer: gatk SelectVariants is giving error while extracting SNPs out of vcf file by Pierre Lindenbaum 158k
This is an error in your input vcf file. The REF allele MUST be différent from the ALT allele.
Comment: gatk SelectVariants is giving error while extracting SNPs out of vcf file by analyst ▴ 10
I observed that my reference genomic fasta file contains both lower case and upper case nucleotides. Do I need to convert lower case nucle…
Comment: Building reference dbSNP file using WGS samples by analyst ▴ 10
I observed that both lower and upper cases are present in reference fasta file. Is bbtool case sensitive that while calling variants it con…
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