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671 results • Page
1 of 14
Sort: Views
Rank
Views
Votes
Replies
160
votes
63
replies
76k
views
38 follow
Selecting Random Pairs From Fastq?
random
fastq
illumina
sequence
updated 2 days ago by
Ram
39k • written 12.2 years ago by
Ketil
4.1k
1.2k
votes
206
replies
50k
views
108 follow
Forum:
What Are The Most Common Stupid Mistakes In Bioinformatics?
software
updated 2 days ago by
Raony Guimarães
★ 1.2k • written 12.2 years ago by
Jeremy Leipzig
21k
66
votes
19
replies
47k
views
17 follow
Tool To Find Out If Fastq Is In Sanger Or Phred64 Encoding?
fastq
tools
updated 3 days ago by
Sara
▴ 10 • written 10.3 years ago by
14134125465346445
★ 3.6k
34
votes
13
replies
37k
views
8 follow
How to filter vcf file on minimum genotype depth and quality for each sample
vcf
bcftools
updated 5 days ago by
Kermit
▴ 80 • written 6.9 years ago by
William
★ 5.2k
6
votes
25
replies
29k
views
14 follow
CluserProfiler message "No gene can be mapped"
R
updated 3 days ago by
13554221497
• 0 • written 5.2 years ago by
ARich
▴ 130
6
votes
23
replies
25k
views
6 follow
devtools Installation error in R (version 3.5.3)?
github
R
phylogeny
devtools
updated 3 days ago by
Ram
39k • written 4.2 years ago by
Kumar
▴ 100
13
votes
3
replies
25k
views
What is the difference between blastx and tblastn?
assembly
blast
ncbi
sequence
updated 2 days ago by
Ram
39k • written 4.0 years ago by
Kumar
▴ 100
27
votes
17
replies
20k
views
8 follow
BioPython: convert fasta to fastq without quality score input file
parsing
phred
fasta
BioPython
fastq
updated 1 day ago by
capemaster
• 0 • written 9.1 years ago by
Josh Herr
5.7k
4
votes
5
replies
13k
views
Take A Subset Of A Fastq Paired-End Sample
paired-end
fastq
rna-seq
illumina
updated 2 days ago by
Ram
39k • written 10.2 years ago by
dfernan
▴ 730
9
votes
31
replies
11k
views
6 follow
How to concatenate multiple fasta file
sequence
genome
updated 2 days ago by
doggie
• 0 • written 4.8 years ago by
fec2
▴ 40
12
votes
3
replies
11k
views
words: time course VS time series
time-course
time-series
updated 3 days ago by
Ram
39k • written 7.7 years ago by
pengchy
▴ 450
3
votes
16
replies
9.9k
views
combining z-scores into a single z-score value
excel
R
statistics
updated 3 days ago by
Ram
39k • written 4.2 years ago by
Star
▴ 60
16
votes
9
replies
9.7k
views
6 follow
problems with MAF for MutSigCV (vcf2maf)
vcf2maf
snp
vcf
MutSigCV
gatk
updated 5 days ago by
RAJDEEP
• 0 • written 8.8 years ago by
A. Domingues
★ 2.6k
10
votes
8
replies
8.3k
views
7 follow
Building Dict File for GATK
java
gatk
updated 2 days ago by
dare_devil
★ 3.1k • written 3.4 years ago by
dec986
▴ 360
10
votes
8
replies
8.3k
views
9 follow
Genome assembly statistical tools
statistics
tools
Assembly
updated 1 day ago by
Bryan
• 0 • written 3.8 years ago by
margab
▴ 10
79
votes
35
replies
8.1k
views
17 follow
Forum:
Do bioinformaticians often break molecular biologists' hearts by being the first author?
authorship
career
updated 5 days ago by
jli.ww
• 0 • written 7.5 years ago by
sentausa
▴ 650
15
votes
10
replies
8.0k
views
Time course experiments in DESeq2
HTSeq
DESeq2
time-course
RNA-seq
updated 3 days ago by
Ram
39k • written 7.1 years ago by
Chris Gene
▴ 80
13
votes
4
replies
7.9k
views
Selection of a "suggestive" level of association in a GWAS study
association
GWAS
statistics
2 days ago by
Vincent Laufer
★ 2.9k
2
votes
2
replies
6.7k
views
GATK -Xmx4G and -Xmx8G
GATK
HaplotypeCaller
updated 1 day ago by
Ram
39k • written 3.9 years ago by
lovegenetics
▴ 70
14
votes
5
replies
6.1k
views
Forum:
Seurat vs Monocle
R
RNA-Seq
next-gen
single-cell
updated 1 day ago by
Ram
39k • written 3.9 years ago by
Arup Ghosh
3.2k
129
votes
38
replies
5.9k
views
21 follow
Forum:
Who are the Greatest Bioinformaticians Of All Time (GBOAT)
bioinformatics
updated 3 days ago by
Ram
39k • written 4.2 years ago by
Istvan Albert
98k
1
vote
7
replies
5.6k
views
Human reference files in HG38 GATK resource bundle
VCF
updated 4 days ago by
dare_devil
★ 3.1k • written 5.3 years ago by
win
▴ 940
18
votes
3
replies
5.4k
views
How to process (seems) Agilent microarrry data?
microarray
rna
updated 6 days ago by
survive
• 0 • written 3.9 years ago by
MatthewP
★ 1.2k
5
votes
10
replies
5.4k
views
7 follow
Time Course RNA-Seq
Time-Course
Bacteria
RNA-Seq
updated 3 days ago by
Ram
39k • written 6.7 years ago by
buthercup_ch
▴ 30
14
votes
11
replies
5.4k
views
7 follow
Forum:
Do you need a deduplication tool for FASTQ data in fastp?
deduplication
fastp
updated 2 days ago by
Ram
39k • written 4.0 years ago by
chen
★ 2.4k
10
votes
4
replies
5.3k
views
Forum:
Bioinformatics: Which language should I learn
programming
updated 3 days ago by
Ram
39k • written 4.1 years ago by
MEHAR ALI RAZA
• 0
6
votes
5
replies
5.3k
views
BWA aln - failed to locate the index
alignment
bwa
updated 15 hours ago by
Ram
39k • written 3.7 years ago by
m.wekking
▴ 10
113
votes
53
replies
5.2k
views
16 follow
Forum:
Middle author, but not first author projects. How would you approach this?
authorship
career-development
updated 3 days ago by
Ram
39k • written 4.2 years ago by
pet.bioinformatician
▴ 170
4
votes
7
replies
5.1k
views
Help making ADMIXTURE output digestible
admixture
updated 2 days ago by
Aaron
▴ 20 • written 7.8 years ago by
devenvyas
▴ 730
17
votes
8
replies
5.1k
views
Applying Patches To Grch Assembly
assembly
human
freeze
genome
updated 1 day ago by
Jeremy Leipzig
21k • written 11.0 years ago by
Nikolay Vyahhi
★ 1.3k
11
votes
7
replies
5.1k
views
Forum:
Using Graphics Processing Units (GPUs) in bioinformatics
algorithm
GPU
updated 16 hours ago by
Ram
39k • written 3.8 years ago by
Denis
▴ 270
9
votes
3
replies
4.5k
views
News:
Bioinformatics Contest 2020. Call for problems
contest
updated 15 hours ago by
Ram
39k • written 3.7 years ago by
alserg
▴ 830
7
votes
7
replies
4.4k
views
RNA-Seq time series analysis using a DESeq2 spline approach yields far too many significant genes
splines
DESeq2
time-series
RNA-Seq
updated 3 days ago by
Ram
39k • written 4.4 years ago by
stu111538
▴ 80
11
votes
5
replies
4.2k
views
Forum:
Bioinformatics Workstation Suggestions
RNA-Seq
next-gen
workstation
updated 2 days ago by
Ram
39k • written 4.0 years ago by
akh22
▴ 90
5
votes
3
replies
4.0k
views
What Do Chromosome Codes Such As 'Chr_Random' Represent?
plink
chromosome
updated 2 days ago by
Ram
39k • written 10.8 years ago by
zhuwei.cug
▴ 30
9
votes
4
replies
3.8k
views
Difference between Allele frequency spectrum and Joint allele frequency spectrum
allele
population structure
updated 1 day ago by
jena
▴ 260 • written 5.1 years ago by
beausoleilmo
▴ 530
4
votes
8
replies
3.7k
views
Limma time-course: how to apply differential contrast if time zero is considered both as treatment and control?
time-course
limma
updated 3 days ago by
Ram
39k • written 5.5 years ago by
harelarik
▴ 90
1
vote
5
replies
3.6k
views
Time-series or pairwise comparison EdgeR - what's more suited?
DGE-analysis
Time-series
pairwise
updated 3 days ago by
Ram
39k • written 6.8 years ago by
Biogeek
▴ 470
11
votes
13
replies
3.4k
views
6 follow
Forum:
NGS Data storage solutions for small organisations or big labs
big-data
HTS
storage
NGS
metagenomics
updated 2 days ago by
Ram
39k • written 4.0 years ago by
bioinfo
▴ 830
2
votes
2
replies
3.4k
views
How to download time series expression datasets?
matlab
time-series
microarray
gene-expression
updated 3 days ago by
Ram
39k • written 7.6 years ago by
Andrea
▴ 60
4
votes
0
replies
3.3k
views
Forum:
How can unique molecular identifiers (UMIs) help to reduce quantitative biases?
NGS
Variant-Calling
Unique-Molecular-Identifier
updated 2 days ago by
Ram
39k • written 4.0 years ago by
David Langenberger
9.9k
7
votes
13
replies
3.3k
views
8 follow
Doubt - installing LncTar software
software installation
Lnctar
perl
updated 2 days ago by
Jeremiah
• 0 • written 3.8 years ago by
kousi31
▴ 50
1
vote
1
reply
3.1k
views
Problem with PGDSpider v 2.1.0.2
alignment
updated 2 days ago by
sackettl
▴ 20 • written 7.0 years ago by
maria.segovia.ramirez
▴ 10
13
votes
25
replies
3.0k
views
7 follow
VEP output has no gene names
alignment
sequencing
vep
updated 2 days ago by
barslmn
★ 1.6k • written 4.8 years ago by
Gene_MMP8
▴ 230
4
votes
7
replies
3.0k
views
How many storage needs for Whole genome sequencing?
Whole-genome-sequencing
sequencing
updated 2 days ago by
Ram
39k • written 4.0 years ago by
star
▴ 340
3
votes
5
replies
2.9k
views
GISTIC 2.0 markers
segmentation
marker
cnv
gistic
updated 15 hours ago by
Ram
39k • written 3.7 years ago by
enho
▴ 40
2
votes
1
reply
2.9k
views
Job:
Bioinformatics Consultant: flexible hours, exciting science: Diamond Age Data Science, Boston, USA (open to remote working)
bioinformatics-consultant
updated 2 days ago by
Ram
39k • written 4.0 years ago by
Eleanor Howe
▴ 20
2
votes
1
reply
2.8k
views
Best CyTOF tools (preferably in R)
CyTOF
R
high-throughput
updated 17 hours ago by
Ram
39k • written 3.8 years ago by
greener
▴ 10
2
votes
12
replies
2.8k
views
6 follow
Using RPK counts as DESeq2 input
deseq2
updated 2 days ago by
Ram
39k • written 6.0 years ago by
adityabandla
▴ 30
5
votes
10
replies
2.8k
views
7 follow
Job:
Bioinformatics tutor good in Python
python
updated 3 days ago by
Ram
39k • written 4.1 years ago by
Yes_peter
▴ 10
671 results • Page
1 of 14
Recent Votes
Comment: Low mapping percentage
Comment: Low mapping percentage
A: genomicranges outside sequence bounds
A: how can i download human ribosomal reference ?
Bayesian network for biological data using bnlearn
Comment: What does canonical transcript mean in the context of VEP
Answer: What does canonical transcript mean in the context of VEP
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Comment: Low mapping percentage
by
Sib
▴ 40
Thank you for the reply. If there is not much I can do about the contamination at this stage, what is the benefit of knowing the source of…
Answer: integrate single cell RNA sequencing data
by
Hamid Ghaedi
2.9k
There are different approaches that you may choose to deal with batch correction. Harmony is one of those approaches that has been shown to…
Comment: What does canonical transcript mean in the context of VEP
by
Vincent Laufer
★ 2.9k
@curious - The only thing I have to add to @yokofakun 's precise answer is that, while you are considering and reading about Ensembl canoni…
Comment: Help with running ATAC using Encode pipeline
by
Chris
▴ 100
Thank you for the instruction! I see the beside json file we also have input file which I am confused. Because we have already defined the …
Comment: Comparing loci across catalogs
by
rycro_c
• 0
Hi @Austin, Did you ever figure this out?
Comment: Low mapping percentage
by
Dave Carlson
★ 1.3k
I've been faced with similar issues in the past. Both option 1 and 2 seem useful. You can also treat your data as accidental metagenomic …
Comment: How to sort gff3 according to chromosome order?
by
Pierre Lindenbaum
154k
-s, --stable stabilize sort by disabling last-resort comparison
Comment: Low mapping percentage
by
GenoMax
129k
If you do have contamination (either from rRNA of same species or from true contaminant(s)) there is not much you can do about that at this…
Comment: Optimum setting for local blastp for ~10K sequences
by
GenoMax
129k
> Running the same sequence on the blast web server took 10 seconds Don't try to compare anything local with NCBI's web blast infrastruct…
Comment: how to Construct a Newick tree file from five large fasta files
by
Joe
21k
Yes, I know - but that doesn't answer the question. **What *kind* of phylogenetic tree?**
Comment: Optimum setting for local blastp for ~10K sequences
by
sodiumnitrate
▴ 20
Thank you for the explanation! I managed to get diamond to work, but I'm having trouble getting it to run faster than blast. For a single t…
Comment: What is "pident" (percentage of identical matches) in the "Diamond" protein alig
by
GenoMax
129k
That is the question @Vincent answer poses since it seems to correspond to something different. You can also create an issue on https://gi…
Answer: How to sort gff3 according to chromosome order?
by
GenoMax
129k
Please use `AGAT`: https://agat.readthedocs.io/en/latest/topological-sorting-of-gff-features.html
Comment: convert data frame with character column to data frame with integer column
by
atemedorri137798
• 0
dear @Basti : As you said in order to clarify my issue I edit question box with give an example. I will be grateful if you take a look at …
Comment: How to sort gff3 according to chromosome order?
by
Ram
39k
Those are your options with the `sort` utility - you can either keep the existing order or re-order by coordinate. If you're looking for a …
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