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1,000 results • Page 3 of 20
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115
votes
29
replies
29k
views
11 follow
PCA in a RNA seq analysis
RNA-Seq pca
updated 4.5 years ago by 27k • written 5.6 years ago by ▴ 330
115
votes
35
replies
38k
views
20 follow
Forum: Snakemake vs. Nextflow: strengths and weaknesses
snakemake nextflow
updated 15 days ago by 39k • written 5.9 years ago by ▴ 760
115
votes
18
replies
38k
views
14 follow
What Are The Best Bioinformatics Course Materials And Videos (Available Online)?
education online
updated 6.1 years ago by ▴ 20 • written 11.8 years ago by ★ 1.3k
115
votes
21
replies
111k
views
14 follow
When To Choose Python Over Perl (And Vice Versa)?
python perl comparison
updated 11.2 years ago by ▴ 30 • written 11.6 years ago by ★ 2.6k
114
votes
25
replies
65k
views
14 follow
Is My Bam File Sorted ?
bam next-gen sequencing sort
updated 3 months ago by ▴ 10 • written 12.3 years ago by 154k
114
votes
7
replies
27k
views
7 follow
What Makes One Probability Distribution Better For Rna-Seq Than Another?
rna
updated 12.2 years ago by ▴ 140 • written 12.2 years ago by 21k
113
votes
53
replies
5.2k
views
16 follow
Forum: Middle author, but not first author projects. How would you approach this?
career development authorship Forum
updated 4.1 years ago by ▴ 270 • written 4.1 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 8 months ago by 39k • written 12.0 years ago by ▴ 480
110
votes
37
replies
7.1k
views
13 follow
Bioinformatics Career Survey 2011/2012
career
updated 3 months ago by 39k • written 11.7 years ago by 154k
109
votes
56
replies
40k
views
23 follow
Gene Fusion Detection: Rna-Seq Data
rna-seq next-gen sequencing fusion
updated 8 months ago by 39k • written 11.0 years ago by ▴ 380
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 16 months ago by 39k • written 11.1 years ago by 11k
106
votes
45
replies
81k
views
30 follow
How To Extract A Sequence From A Big (6Gb) Multifasta File ?
fasta
updated 8 months ago by ▴ 30 • written 10.8 years ago by ▴ 320
106
votes
23
replies
20k
views
16 follow
Forum: How Did You Learn Good Practice In Bioinformatics/Computational Biology?
bioinformatics
updated 12 weeks ago by 39k • written 9.3 years ago by ▴ 580
105
votes
27
replies
14k
views
14 follow
Is There Such A Thing As A Ucsc Api?
ucsc python comparative api
updated 2.0 years ago by ★ 1.5k • written 12.5 years ago by 2.3k
105
votes
26
replies
39k
views
23 follow
How To Create Mutation Diagram In R Or In Any Tools?
mutation domain r
updated 8 months ago by 39k • written 10.4 years ago by ▴ 810
105
votes
72
replies
14k
views
17 follow
Digesting Fasta Sequences Into A Set Of Smaller Sequences
code fasta sequence codegolf
updated 4.6 years ago by 11k • written 12.8 years ago by 11k
105
votes
46
replies
12k
views
13 follow
Forum: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
epigenetics
updated 12 weeks ago by 39k • written 9.7 years ago by ★ 1.1k
105
votes
21
replies
19k
views
19 follow
Why Should I Use Galaxy ?
galaxy workflow
6.1 years ago by Pierre Lindenbaum 154k
103
votes
20
replies
28k
views
16 follow
What Wetlab Techniques Does A Bioinformatician Need To Be Able To Perform, If Any?
education meta
updated 12.2 years ago by ★ 1.6k • written 12.2 years ago by 3.2k
103
votes
12
replies
73k
views
7 follow
Bedtools Compare Multiple Bed Files?
bedtools intersect
updated 7 months ago by 39k • written 11.6 years ago by ★ 1.7k
102
votes
81
replies
25k
views
17 follow
Duplicates on Illumina
duplicates illumina
updated 9 months ago by 129k • written 6.4 years ago by ★ 1.9k
102
votes
19
replies
17k
views
15 follow
How Does A Bioinformatics Scientist Document His/Her Work?
workflow
updated 3 months ago by 39k • written 11.0 years ago by ▴ 830
102
votes
44
replies
7.9k
views
22 follow
What Are Numbers Every Bioinformatician Should Know?
knowledge career
updated 12 weeks ago by 39k • written 9.8 years ago by 24k
102
votes
30
replies
60k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene enrichment tool
updated 11 months ago by 39k • written 13.2 years ago by ★ 1.0k
101
votes
6
replies
23k
views
6 follow
Tutorial: Creating workflows with snakemake and conda
workflow snakemake conda
updated 10 weeks ago by 39k • written 4.7 years ago by 16k
101
votes
31
replies
83k
views
18 follow
Best Way To Merge A Many Thousand Small Bam Files Into One Big Bam File?
bam picard samtools merge
updated 10 months ago by 39k • written 11.9 years ago by ★ 5.0k
100
votes
12
replies
36k
views
14 follow
Best Software For Detection Of Somatic Mutations From Matched Tumor:Normal Ngs Data
somatic-mutation variant-calling SNV
updated 20 months ago by 39k • written 11.2 years ago by ★ 2.8k
100
votes
38
replies
28k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 20 days ago by 21k • written 9.5 years ago by ★ 3.6k
100
votes
15
replies
100k
views
15 follow
Convertion Of Gff3 To Gtf
gtf gff
updated 12 weeks ago by ▴ 20 • written 11.0 years ago by 12k
100
votes
6
replies
57k
views
6 follow
Insert Size And Fragment Size ?
19 months ago by Nicolas Rosewick 10k
99
votes
8
replies
27k
views
8 follow
Tutorial: Guide to TCGA data
cancer RNA-Seq clinical TCGA
updated 7 weeks ago by 39k • written 7.2 years ago by ★ 1.1k
99
votes
16
replies
30k
views
18 follow
Tutorial: Heatmaps in R
heatmap R
updated 10 weeks ago by 39k • written 6.8 years ago by 26k
99
votes
16
replies
75k
views
15 follow
How Much Coverage Do We Need For An Rna-Seq Experiment?
rna-seq coverage
8.5 years ago by Obi Griffith 20k
99
votes
44
replies
21k
views
33 follow
Best Free Text Editor For All Popular Languages (R, Python, Perl Etc..)
text r perl python
updated 5.7 years ago by ★ 2.5k • written 11.2 years ago by ★ 1.5k
99
votes
24
replies
15k
views
16 follow
Workflow management software for pipeline development in NGS
pipeline workflow
updated 16 months ago by 39k • written 8.6 years ago by ▴ 310
99
votes
21
replies
8.0k
views
14 follow
Forum: How Has Bioinformatics Improved Over Time?
bioinformatics
updated 3 months ago by 39k • written 10.3 years ago by ▴ 370
98
votes
9
replies
115k
views
11 follow
How To Merge Two Fastq.Gz Files?
merge fastq
updated 13 months ago by ▴ 40 • written 9.7 years ago by ▴ 750
98
votes
31
replies
99k
views
20 follow
How To Split A Bam File By Chromosome
bam split chromosome
updated 15 months ago by ▴ 120 • written 11.0 years ago by ▴ 390
98
votes
41
replies
4.6k
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 7 weeks ago by 39k • written 6.7 years ago by ▴ 500
98
votes
12
replies
48k
views
6 follow
Ensembl-Ids Vs. Entrez-Ids
ensembl entrez gene
updated 2.2 years ago by ▴ 10 • written 11.4 years ago by ▴ 420
97
votes
26
replies
9.6k
views
15 follow
Do You Trust Bio-Xxx Projects ?
biopython bioperl biojava subjective
updated 12.3 years ago by 11k • written 12.3 years ago by ★ 2.2k
97
votes
23
replies
32k
views
15 follow
Is Tophat The Only Mapper To Consider For Rna-Seq Data?
bwa tophat rna-seq
updated 12 months ago by 39k • written 10.4 years ago by ▴ 330
97
votes
19
replies
88k
views
12 follow
How To Get The Sequence Of A Genomic Region From Ucsc?
sequence ucsc fasta
updated 9 months ago by 39k • written 13.3 years ago by 27k
97
votes
35
replies
24k
views
16 follow
Disease Associated Snps
snp gwas database
updated 9.3 years ago by • 0 • written 13.0 years ago by ★ 1.5k
96
votes
26
replies
30k
views
15 follow
What Methods Do You Use For In/Del/Snp Calling?
sequencing short aligner snp
updated 9.6 years ago by 20 • written 13.1 years ago by 154k
95
votes
27
replies
76k
views
21 follow
Extract Sub-Set Of Regions From Vcf File
vcf tabix genome filter
updated 8 days ago by • 0 • written 11.0 years ago by ▴ 820
94
votes
25
replies
31k
views
11 follow
Tutorial: Fastq Quality Control Shootout
quality qc trimming fastq
updated 3 months ago by 39k • written 10.7 years ago by 98k
94
votes
31
replies
37k
views
17 follow
What Is The Quickest Algorithm For Range Overlap?
python alignment next-gen sequencing database
updated 14 months ago by 39k • written 12.8 years ago by ▴ 280
93
votes
21
replies
22k
views
13 follow
What Are The Advantages/Disadvantages Of One-Based Vs. Zero-Based Genome Coordinate Systems
coordinates genome
updated 8.5 years ago by 20 • written 12.2 years ago by 18k
93
votes
6
replies
34k
views
In Sam Format, Clarify The Meaning Of The "0" Flag.
sam
updated 12.1 years ago by ★ 1.4k • written 12.1 years ago by ▴ 570
1,000 results • Page 3 of 20
Recent Votes
Comment: DEgs RNAseq
Answer: ScRNA data
Answer: extract all fasta sequence from db v5
Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, but the Max expression are near 20,000
Comment: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b
Answer: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b
A: extract dendrogram cluster from pheatmap
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Recent Replies
Comment: Do bioinformaticians often break molecular biologists' hearts by being the first by jli.ww • 0
Based on my personal experience as a computational biologist, I was not a co-first author even if I prioritized the candidates from the pub…
Comment: DEgs RNAseq by Juan • 0
Dear Delaney Sullivan, thanks, finlly I did my analisys
Answer: ScRNA data by Dr William Klubinski ▴ 20
It seems like your single cell RNAseq data does not already contain the Cell Barcodes or Unique Molecular Identifiers in the standard way -…
Comment: Demultiplexing bam file by GenoMax 129k
> Part of the header of the bam file So perhaps there are more samples. https://www.biostars.org/u/21477/: `grep "SM*" header_of_bam`. Is…
Answer: extract all fasta sequence from db v5 by GenoMax 129k
If you need the fasta sequence download from NCBI here (146 GB zip compressed file) : https://ftp.ncbi.nih.gov/blast/db/FASTA/nr.gz
Comment: ScRNA data by GenoMax 129k
Is this from a SRA dataset? If so it is possible that you can get the correct information in `DataAccess` tab. Provide the accession number…
Comment: extract all fasta sequence from db v5 by Pierre Lindenbaum 154k
is version 4 compatible with blast v5 ? try to use version 4....
Comment: Pre-processing for Agilent microarray data? by solarchan7 • 0
thank you!
Comment: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b by alwayshope ▴ 20
Thanks a lot! Very helpful detailed guidance! Appreciate it a lot!
Answer: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b by Dr William Klubinski ▴ 20
The values you are getting, with a third quartile of appx 10 and a max of appx 20,000, seem quite standard for RNA-Seq analysis. The RNA-se…
Comment: Demultiplexing bam file by Pierre Lindenbaum 154k
you don't talk about the size in your question
Comment: Demultiplexing bam file by hasani.iut6 ▴ 60
so why the size of bam file is 40 gig?
Comment: Demultiplexing bam file by Pierre Lindenbaum 154k
> I want to separate every sample I don't understand. In your header there is only one sample : "`13.02.1402_POOL2"`
Comment: Error while running Megahit by Mensur Dlakic ★ 23k
We can't even begin to guess what the problem was without an error message.
Comment: DEgs RNAseq by dsull ★ 4.2k
Is this single-cell RNAseq or non-single-cell RNAseq? For single-cell, you typically don't do standard "differential gene expression analy…
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