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1,000 results • Page 2 of 20
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121
votes
35
replies
40k
views
20 follow
Forum: Snakemake vs. Nextflow: strengths and weaknesses
snakemake nextflow
updated 4 months ago by 40k • written 6.3 years ago by ▴ 790
120
votes
33
replies
37k
views
24 follow
Forum: Where To Look For Quality Bioinformatics Short Courses And Workshops?
Courses
updated 4 months ago by ★ 2.4k • written 10.1 years ago by 11k
118
votes
74
replies
44k
views
40 follow
Is there a Lims that doesn't suck?
LIMS
updated 11 months ago by 134k • written 12.8 years ago by ★ 3.3k
118
votes
26
replies
34k
views
22 follow
Transcript to gene level count for DEseq(2) use- Salmon/Sailfish/Kallisto etc.
DESeq Kallisto RNASeq Salmon DESeq2
updated 6 months ago by ▴ 80 • written 8.4 years ago by ▴ 610
117
votes
59
replies
31k
views
23 follow
Help a graduate student going into Bioinformatics looking for a new personal laptop. Should I get a Mac or a PC?
hardware next-gen
updated 7 months ago by 40k • written 8.4 years ago by ▴ 30
116
votes
66
replies
43k
views
20 follow
Tutorial: [Deprecated] Fast download of FASTQ files from the European Nucleotide Archive (ENA)
aspera fastq-dump Fastq ENA
updated 6 months ago by 40k • written 5.2 years ago by 77k
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
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
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 4 months ago by 40k • written 4.5 years ago by ▴ 170
110
votes
37
replies
7.5k
views
13 follow
Bioinformatics Career Survey 2011/2012
career
updated 7 months ago by 40k • written 12.0 years ago by 157k
106
votes
23
replies
21k
views
16 follow
Forum: How Did You Learn Good Practice In Bioinformatics/Computational Biology?
bioinformatics
updated 7 months ago by 40k • written 9.7 years ago by ▴ 590
105
votes
26
replies
41k
views
23 follow
How To Create Mutation Diagram In R Or In Any Tools?
mutation domain r
updated 15 days ago by 11k • written 10.7 years ago by ▴ 810
105
votes
46
replies
12k
views
13 follow
Forum: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
epigenetics
updated 7 months ago by 40k • written 10.1 years ago by ★ 1.1k
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
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
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
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
100
votes
34
replies
105k
views
23 follow
How To Split A Bam File By Chromosome
bam split chromosome
updated 23 hours ago by 14k • written 11.3 years ago by ▴ 390
100
votes
15
replies
104k
views
15 follow
Convertion Of Gff3 To Gtf
gtf gff
updated 7 months ago by ▴ 20 • written 11.4 years ago by 12k
100
votes
38
replies
29k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 4 days ago by 21k • written 9.9 years ago by ★ 3.6k
99
votes
8
replies
28k
views
8 follow
Tutorial: Guide to TCGA data
cancer RNA-Seq clinical TCGA
updated 6 months ago by 40k • written 7.6 years ago by ★ 1.1k
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
99
votes
16
replies
32k
views
18 follow
Tutorial: Heatmaps in R
heatmap R
updated 6 months ago by 40k • written 7.2 years ago by 26k
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
97
votes
27
replies
82k
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
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
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
93
votes
19
replies
57k
views
18 follow
What Is A Good Phylogenetic Tree Display Program For Large Data Sets?
phylogenetics-tree
updated 3 months ago by 40k • written 13.1 years ago by ★ 2.6k
93
votes
39
replies
142k
views
19 follow
Extract Reads From A Bam File That Fall Within A Given Region
bam
updated 5 months ago by ▴ 160 • written 11.2 years ago by ▴ 380
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 7 months ago by 40k • written 9.9 years ago by 98k
92
votes
46
replies
11k
views
28 follow
Best Language For Introductory Programming Course From Within An Introduction Course On Bioinformatics.
programming subjective
updated 7 months ago by 40k • written 12.2 years ago by 3.2k
92
votes
18
replies
64k
views
12 follow
Sequence length from Fasta
fasta
updated 9 months ago by 40k • written 8.9 years ago by ▴ 80
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 11 months ago by 40k • written 9.4 years ago by 20k
90
votes
16
replies
21k
views
15 follow
Are we tricking ourselves with batch effect correction?
combat batch-effect sva
updated 8 months ago by ▴ 20 • written 8.3 years ago by ★ 3.0k
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 7 months ago by 40k • written 9.9 years ago by 20k
89
votes
13
replies
20k
views
9 follow
What Do Different Bioinformatics Positions Mean?
career general
updated 7 months ago by 40k • written 13.5 years ago by ★ 1.6k
88
votes
24
replies
5.1k
views
10 follow
Forum: How To Be Helpful As A Biostar Moderator/Editor?
biostars
updated 7 months ago by 40k • written 10.6 years ago by 1.9k
86
votes
22
replies
80k
views
14 follow
Tutorial: How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
bcftools samtools htslib
updated 12 weeks ago by • 0 • written 5.2 years ago by ▴ 580
86
votes
29
replies
9.1k
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 5 months ago by 40k • written 7.3 years ago by 53k
85
votes
2
replies
56k
views
6 follow
Tutorial: How To Ask Good Questions On Technical And Scientific Forums
how-to
updated 7 months ago by 40k • written 10.3 years ago by 11k
85
votes
16
replies
90k
views
9 follow
Number of mapped reads from BAM file
bam sam reads mapping
updated 10 months ago by ▴ 50 • written 8.5 years ago by ★ 2.7k
84
votes
21
replies
19k
views
16 follow
Tutorial: Gene Set Enrichment Analysis
microarray enrichment RNA-Seq GSEA
updated 6 months ago by 40k • written 3.0 years ago by 3.0k
84
votes
29
replies
30k
views
20 follow
Tutorial: How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor GenVisR Graphics R
updated 10 weeks ago by • 0 • written 7.6 years ago by 20k
84
votes
47
replies
30k
views
28 follow
Tutorial: Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm rna-seq bioconductor
updated 5 days ago by 40k • written 10.0 years ago by ★ 7.7k
84
votes
22
replies
4.0k
views
12 follow
Forum: is fortran still used in bioinformatics?
FORTRAN R
updated 6 months ago by 40k • written 4.3 years ago by ▴ 180
83
votes
34
replies
17k
views
22 follow
Tutorial: Enrichment Analysis, Clustering and Scoring with pathfindR
enrichment R pathway active-subnetwork
updated 4 months ago by • 0 • written 5.3 years ago by ★ 1.3k
83
votes
20
replies
18k
views
17 follow
How Do Pathway Databases Compare?
pathway database subjective
updated 10 weeks ago by ▴ 30 • written 12.9 years ago by ▴ 470
82
votes
32
replies
7.0k
views
13 follow
Forum: Shall We Go Back To Stackexchange?
meta
updated 7 months ago by 40k • written 10.9 years ago by ★ 3.6k
82
votes
19
replies
12k
views
8 follow
Future Directions In Bioinformatics
subjective career
updated 7 months ago by 40k • written 12.9 years ago by ★ 1.5k
1,000 results • Page 2 of 20
Recent Votes
Getting error in running rMATS
Bioinformatics short paper journal resource [software/webapps/database]
A: Bioinformatics short paper journal resource [software/webapps/database]
A: Bioinformatics short paper journal resource [software/webapps/database]
Answer: Bioinformatics short paper journal resource [software/webapps/database]
Bioinformatics short paper journal resource [software/webapps/database]
Answer: Installation: Tax4Fun2 package are not found and github repository is not mainta
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Recent Replies
Comment: Convert amino acid sequences into nucleotide sequences by Joe 21k
You will need to look at `seqkit`'s regex and other advanced matching tools in that case, since you can't use simple string matches. …
Comment: How can I compute energy from a protein PDB file? by Matthias Zepper 4.1k
Not at all my field of expertise, but the [AMBER package][1] is what we used in our protein bioinfo classroom exercise back in the day. I t…
Comment: Convert amino acid sequences into nucleotide sequences by sperezilvia ▴ 10
I have a problem. The SeqID from the nucleotide.fasta doesn't match with the SeqID from the protein.fasta because in the protein.fasta the …
Comment: How to plot coverage and depth statistics of a bam file by William ▴ 20
Hi Jinli, It seems to be related to the pandas version you are using. Which version are you using? Try to install the latest version and s…
Comment: QC of genetic data by kl ▴ 10
Thanks for the advice. What about the third column (GS in plink). I am used to it being 0? And last question, what does it mean when there …
Comment: Is there any way i can determine the kit used for library preparation for whole by ATpoint 77k
You can align the data and then determine coverage over the exons, then checking which kit (based on what they promise to capture) it fits …
Comment: Installation: Tax4Fun2 package are not found and github repository is not mainta by zx8754 11k
https://github.com/ZihaoShu/Tax4Fun2 has tar file `Tax4Fun2_1.1.5.tar.gz`, download and [install from source](https://stackoverflow.com/q/…
Answer: Bioinformatics short paper journal resource [software/webapps/database] by Gennady Khvorykh ▴ 100
[NAR Genomics and Bioinformatics][1] also has Application Notes section for short (up to 3000 words) articles devoted to program, workflow,…
Comment: Bam sort merge error? by Pierre Lindenbaum 157k
it's just a log about : https://en.wikipedia.org/wiki/External_sorting and about https://en.wikipedia.org/wiki/Merge_sort
Answer: I need help with univariate logistic regression in a set of microarray data by DareDevil ★ 3.3k
LR can be sensitive to the scale of your predictor variable. Since your gene expression values are all within a small range (between 8 and …
Comment: identify DEGs across all conditions and per specific conditions by Yogi ▴ 40
Glad to hear!
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by Yogi ▴ 40
Fair enough
Comment: Help with error running velocyto by Chris ▴ 200
Unfortunately, I got a new error: MemoryError: bam file #0 could not be sorted by cells. This is probably related to an ol…
Answer: How to assign gene names after kallisto when I add GFP? by dsull ★ 4.8k
kallisto relies on a transcriptome index, so simply add the GFP sequence to the transcriptome FASTA file and index it. The name in the outp…
Comment: How to convert data in r? by Ram 40k
While `%>%` is indeed exported by magrittr, `dplyr` is the most popular package to use them. dplyr imports magrittr, it does not define the…
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