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1,000 results • Page
6 of 20
Sort: Votes
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Views
Votes
Replies
72
votes
48
replies
18k
views
15 follow
Tutorial:
For Short Reads, Which Aligners Find All Hits Given Certain Edit Distance Threshold?
ngs
alignment
bwa
updated 14 months ago by
Ram
43k • written 11.2 years ago by
lh3
33k
72
votes
18
replies
55k
views
13 follow
Extracting Multiple Fasta Sequences At A Time From A File Containing Many Sequences
fasta
sequence
parsing
perl
updated 13.6 years ago by
Peter
6.0k • written 13.6 years ago by
Sarah
▴ 110
72
votes
48
replies
8.5k
views
18 follow
What Kind Of Bioinformatics Tutorials Would You Like To See Online?
education
updated 14 months ago by
Ram
43k • written 13.0 years ago by
User 59
13k
72
votes
12
replies
4.3k
views
7 follow
Does Pre-Publishing Open Source Algorithms Hurt Chances Of Getting Published?
publication
algorithm
updated 21 months ago by
Ram
43k • written 12.6 years ago by
Martijn Van Iersel
▴ 570
72
votes
20
replies
88k
views
15 follow
How To Get Ensembl Id (Gene, Transcript, Protein) Mapping Information?
ensembl
identifiers
mapping
updated 15 months ago by
Ram
43k • written 13.5 years ago by
Unode
▴ 180
72
votes
28
replies
6.3k
views
10 follow
Forum:
Bioinformatics commercial services as a risk factor for scientific misconduct
commercial-services
ethics
misconduct
updated 22 months ago by
Ram
43k • written 9.3 years ago by
Angle45
▴ 90
72
votes
71
replies
31k
views
17 follow
Tool:
EnhancedVolcano: Publication-ready volcano plots with enhanced colouring and labeling
volcano-plot
bioconductor
ggplot2
ggrepel
updated 10 months ago by
Ram
43k • written 5.7 years ago by
Kevin Blighe
87k
71
votes
15
replies
49k
views
10 follow
Definition of minor and major allele and connection with risk, effect, wildtype and reference allele
risk
minor
major
reference
alleles
written 6.0 years ago by
m98
▴ 420
71
votes
16
replies
91k
views
12 follow
What Does Samtools Flagstat Results Mean?
rna
samtools
mouse
updated 2.1 years ago by
Pierre Lindenbaum
161k • written 12.6 years ago by
Sakti
▴ 510
70
votes
19
replies
5.6k
views
13 follow
Forum:
Thrown Into A Bioinformatics Position
computational-analysis
updated 21 months ago by
Ram
43k • written 8.6 years ago by
System
▴ 170
70
votes
15
replies
16k
views
12 follow
Transcription Factor Enrichment
transcription
transcript
sequence
enrichment
updated 7.5 years ago by
jin
▴ 80 • written 13.5 years ago by
Dave Bridges
★ 1.4k
70
votes
5
replies
11k
views
8 follow
Tutorial:
Bioinformatics For Metagenomic Analyses
QC
taxonomy
metagenomics
updated 2.1 years ago by
Ram
43k • written 10.1 years ago by
umer.zeeshan.ijaz
★ 1.8k
70
votes
33
replies
17k
views
18 follow
Choosing Random Set Of Seqs From Larger Set
random
fasta
updated 24 months ago by
Ram
43k • written 12.1 years ago by
razor
▴ 190
70
votes
16
replies
10k
views
11 follow
Creating A New Bioinformatics Unit
core
career
updated 14 months ago by
Ram
43k • written 12.8 years ago by
Israel Barrantes
▴ 790
70
votes
12
replies
30k
views
8 follow
Drug to Target/Gene/Protein Interaction Databases
protein
target
database
drug
gene
updated 2.7 years ago by
Ram
43k • written 12.2 years ago by
Wayne
★ 1.0k
70
votes
29
replies
15k
views
13 follow
Tutorial:
Generating consensus sequence from bam file
fasta
consensus
bam
updated 6 weeks ago by
jkbonfield
★ 1.2k • written 5.2 years ago by
finswimmer
16k
69
votes
25
replies
7.0k
views
16 follow
How Do You Explain What You Do To The Guy On The Street Or Your Mum?
general
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Dave Gerrard
▴ 190
69
votes
22
replies
40k
views
17 follow
Plotting Density Of Snps On Chromosomes
snp
snp
plot
updated 6.7 years ago by
kaixian110
• 0 • written 12.1 years ago by
Leszek
4.2k
69
votes
39
replies
4.6k
views
14 follow
Forum:
Preparation for Bioinformatics.SE closing
meta
biostars
updated 11 months ago by
Ram
43k • written 6.9 years ago by
John
13k
69
votes
13
replies
37k
views
8 follow
How Do People Go About Pubmed Text Mining
pubmed
text
updated 12.8 years ago by
Chris Evelo
10k • written 12.8 years ago by
Lyco
★ 2.3k
69
votes
17
replies
39k
views
12 follow
Transform a GTF file into a data frame in R
R
RNA-Seq
GTF
updated 14 months ago by
Ram
43k • written 6.6 years ago by
biomagician
▴ 410
68
votes
22
replies
7.9k
views
16 follow
Forum:
Learning Python: list of resources
python
updated 12 months ago by
Ram
43k • written 7.5 years ago by
dago
★ 2.8k
68
votes
48
replies
8.8k
views
16 follow
Forum:
Stranger Things: unexpected limitations of popular tools
samtools
hisat2
updated 11 months ago by
Ram
43k • written 6.8 years ago by
Istvan Albert
100k
68
votes
18
replies
130k
views
14 follow
from .BAM to .BAI using samtools
next-gen-sequencing
samtools
updated 3 months ago by
Pierre Lindenbaum
161k • written 9.6 years ago by
Kizuna
▴ 870
68
votes
5
replies
22k
views
8 follow
Can someone please explain in simple terms how DESeq2 works?
DESeq2
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
BioStars1993
▴ 130
68
votes
23
replies
36k
views
16 follow
How Do I Do Simple Go Term Lookup Given A Gene (Or Mrna) Identifier?
gene
annotation
database
updated 3.1 years ago by
Ram
43k • written 13.9 years ago by
Ryan Thompson
★ 3.6k
68
votes
18
replies
73k
views
17 follow
Project For A Beginner Bioinformatics Student
project
java
updated 21 months ago by
Ram
43k • written 12.5 years ago by
And
▴ 240
68
votes
6
replies
28k
views
8 follow
What Is A "Spot" In Sra Format
sra
fastq
format
updated 15 months ago by
Ram
43k • written 12.6 years ago by
Daniel Standage
4.1k
68
votes
40
replies
6.4k
views
11 follow
Can We Agree On A Short Twitter Hashtag For Nextgen Sequencing?
next-gen
sequencing
sequencing
updated 12.5 years ago by
pmenzel
▴ 310 • written 12.5 years ago by
Samuel Lampa
★ 1.3k
68
votes
25
replies
16k
views
12 follow
Tool:
sra-explorer : find SRA and FastQ download URLs in a couple of clicks
fastq
SRA
updated 6 months ago by
GenoMax
141k • written 5.2 years ago by
Phil Ewels
★ 1.4k
67
votes
17
replies
23k
views
15 follow
What Are The 'Copy Number Detection' Tools Out There For Exome Capture Ngs Data.
cnv
copynumber
next-gen
sequencing
variant
structural
updated 2.2 years ago by
Ram
43k • written 12.5 years ago by
Prateek
★ 1.0k
67
votes
13
replies
12k
views
12 follow
Good Books And Resources For Figuring Out Biostatistics?
statistics
books
updated 2.8 years ago by
Ram
43k • written 12.9 years ago by
Adamc
▴ 680
67
votes
15
replies
33k
views
14 follow
Rna-Seq Pipeline
pipeline
next-gen-sequencing
rna
rna-seq
updated 11 months ago by
Ram
43k • written 14.0 years ago by
brentp
24k
67
votes
40
replies
9.7k
views
12 follow
Forum:
I want to re-open the old debate: python or perl ?
perl
python
updated 2.2 years ago by
Ram
43k • written 9.4 years ago by
Gabriel R.
★ 2.9k
67
votes
9
replies
12k
views
Rna-Seq: Novel Transcripts Found. What Next?
rna-seq
updated 10.9 years ago by
Devon Ryan
104k • written 10.9 years ago by
jobinv
★ 1.1k
67
votes
21
replies
6.1k
views
8 follow
Forum:
Meta: Markdown in Biostars (now enabled)
meta
13 months ago by
Ram
43k
67
votes
6
replies
26k
views
7 follow
Tutorial:
Rna-Seq Review Papers
RNA-seq
papers
updated 14 months ago by
Ram
43k • written 11.7 years ago by
Istvan Albert
100k
66
votes
23
replies
49k
views
8 follow
extract dendrogram cluster from pheatmap
R
updated 6 weeks ago by
Getnet Tesfaw
• 0 • written 6.4 years ago by
1769mkc
★ 1.2k
66
votes
23
replies
11k
views
13 follow
How To Get Started In Bioinformatics?
books
updated 7.4 years ago by
jp
▴ 120 • written 14.1 years ago by
Oli
▴ 180
66
votes
25
replies
6.6k
views
13 follow
Data Selection With/Without Databases (Large Data Sets, Orms, And Speed)
database
python
data
updated 11.2 years ago by
kwete90
• 0 • written 13.1 years ago by
Sequencegeek
▴ 740
66
votes
19
replies
51k
views
17 follow
Tool To Find Out If Fastq Is In Sanger Or Phred64 Encoding?
fastq
updated 10 months ago by
Ram
43k • written 11.2 years ago by
14134125465346445
★ 3.6k
66
votes
29
replies
16k
views
15 follow
Forum:
Fundamentals Of Designing Biological Databases?
database
updated 14 months ago by
Ram
43k • written 13.5 years ago by
anon1234z
▴ 130
66
votes
21
replies
6.8k
views
18 follow
Forum:
Is there anyone who was a pure biologist?
next-gen
updated 13 months ago by
Ram
43k • written 10.0 years ago by
Chong Tang
▴ 100
66
votes
39
replies
7.5k
views
13 follow
What Do You Consider The Most Trivial And The Most Challenging Tasks In Your Particular Field Of Work?
career
subjective
updated 3.1 years ago by
Ram
43k • written 14.1 years ago by
Marcos De Carvalho
▴ 310
66
votes
43
replies
27k
views
23 follow
Ngs - Huge (Fastq) File Parsing - Which Language For Good Efficiency ?
next-gen
sequencing
parsing
fastq
programming
updated 2.3 years ago by
Ram
43k • written 13.3 years ago by
toni
★ 2.2k
66
votes
19
replies
23k
views
13 follow
Online Bioinformatics Training Options
training
updated 11.3 years ago by
parvan.zahra
• 0 • written 12.2 years ago by
John
★ 1.5k
66
votes
9
replies
110k
views
10 follow
Blog:
Gene expression units explained: RPM, RPKM, FPKM and TPM
gene-expression
RNA-Seq
updated 14 months ago by
Ram
43k • written 6.6 years ago by
Renesh
★ 2.2k
66
votes
22
replies
24k
views
9 follow
Finding Gene Symbol Synonyms
annotation
updated 2.2 years ago by
Ram
43k • written 13.9 years ago by
Mike Dewar
★ 1.6k
66
votes
9
replies
49k
views
7 follow
Tutorial:
Reference Assembly - Mapping Reads To A Reference Genome
reference
samtools
mapping
bwa
updated 14 months ago by
Ram
43k • written 10.8 years ago by
Joseph Hughes
★ 3.0k
66
votes
8
replies
16k
views
7 follow
How Are Rna-Seq Transcripts Assigned?
rna
cufflinks
isoform
rna-seq
updated 9.8 years ago by
Malachi Griffith
19k • written 12.3 years ago by
Dave Bridges
★ 1.4k
1,000 results • Page
6 of 20
Recent Votes
Difference between Genotype 0|1 and 1|0 in VCF file?
Answer: Mapping ortholog human and mouse transcript
C: Kallisto missing Bootstrap
Answer: Very low RNA splicing rate for pulmonary AT2 cells
Answer: what is the purpose of indexing the reference genome (Kallisto)
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Recent Replies
Comment: When to use .vcf or .gvcf files from GATK HaplotypeCaller?
by
Medhat
9.7k
"./." in your gVCF files typically indicates a lack of information or uncertainty about the genotype at that particular position. This co…
Comment: FastQC Quality per tile and per sequence behaving strange after using Cutadapt
by
salias
• 0
Fungal ITS2 region (length is really variable so read-through can be an issue)
Answer: Is it possible to bulk download files from GEO repository?
by
noodle
▴ 570
Also try the NCBI AWS bucket transfer tool. It's extremely convenient, however it's not instantaneous and you need to have a (paid) AWS acc…
Comment: FastQC Quality per tile and per sequence behaving strange after using Cutadapt
by
GenoMax
141k
Check a random sampling of reads to make sure the adapters are being removed. You may also want to blast a few reads to ensure that there i…
Comment: FastQC Quality per tile and per sequence behaving strange after using Cutadapt
by
salias
• 0
Many thanks for your comment. If read-through is happening, shouldn't Cutadapt being taking care of that there? I provided to the Cutadapt …
Comment: How should I make kallisto indexes?
by
bioinfo
▴ 150
Thank you. I will read the documentation you attached. Are you going to slowly phase out the not kb ref commands? Also, does the t2g.txt fi…
Comment: FastQC Quality per tile and per sequence behaving strange after using Cutadapt
by
GenoMax
141k
> I need to understand why is this happening More than likely you have library fragments that are shorter than the length of sequencing. W…
Comment: Genbank File Format
by
Mensur Dlakic
★ 27k
I think this is a question for CLC support. It should be trivial for them to combine these fields into one. In other words, you need a bett…
Answer: Programmatically retrieving positions of protein active site residues
by
Mensur Dlakic
★ 27k
Although this probably doesn't qualify as `programmatically retrieving positions`, you can always do it by sequence alignments. This can be…
Answer: metagenomic virome quality assessment
by
Mensur Dlakic
★ 27k
The error message points to a problem with `prodigal-gv`. What happens when you type `prodigal-gv` on the command line? It is never a go…
Comment: Programmatically retrieving positions of protein active site residues
by
Wayne
★ 2.0k
"I have seen other similar posts but a lot of the tools and websites suggested are down." Please show & share your research as part of you…
Comment: Software to separate reads from different individuals
by
njornet
▴ 20
No... the extracted sample is already a mix so no way to barcode
Comment: Very low RNA splicing rate for pulmonary AT2 cells
by
e.r.zakiev
▴ 200
For anyone it might be useful: a colleague of mine, who was not dumb to use the wrong annotation `gtf` as I did, also observed an important…
Answer: Very low RNA splicing rate for pulmonary AT2 cells
by
e.r.zakiev
▴ 200
Hello people sorry I am dumb the problem lied in the fact that I had mouse cells but my `.gtf` transcriptome file was for the human. Now wi…
Comment: Genbank File Format
by
GenoMax
141k
Can you indicate if you need to do this within CLC or can use an external solution (if someone provides it here). If you need to do this in…
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