Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : this year
all time
today
this week
this month
this year
1,000 results • Page
5 of 20
Sort: Views
Rank
Views
Votes
Replies
28
votes
27
replies
15k
views
9 follow
Extracting A Subset Of Sequences From A Fastq File (Biopython Speed)
biopython
python
fastq
next-gen-sequencing
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Darked89
4.6k
40
votes
6
replies
15k
views
7 follow
Mapping Ensembl Gene IDs with dot suffix
ensembl
gene
biomart
bioconductor
R
updated 9 months ago by
zx8754
11k • written 6.2 years ago by
mk
▴ 290
17
votes
12
replies
15k
views
10 follow
Converting from BED to SAF/GFF
bed
gff
saf
featureCount
updated 6 months ago by
drperaltaxp
• 0 • written 7.4 years ago by
ccag
▴ 60
3
votes
5
replies
15k
views
NCBI error report
blastp
alignment
updated 10 months ago by
Ram
43k • written 8.1 years ago by
archana.bioinfo87
▴ 210
8
votes
2
replies
15k
views
Tool:
Bow: Bioinformatics On Windows: Bwa And Samtools
windows
updated 10 months ago by
Ram
43k • written 11.6 years ago by
Istvan Albert
100k
1
vote
7
replies
15k
views
7 follow
How To Annotate Methylation 450K?
methylation
updated 29 days ago by
Vassilis
• 0 • written 10.1 years ago by
liu4gre
▴ 210
18
votes
25
replies
15k
views
13 follow
Easy way to split VCF file by chromosome
sequence
TOPMED
chromosome
Imputation
SNP
updated 10 months ago by
Pierre Lindenbaum
161k • written 2.3 years ago by
ConvolutedGenome
▴ 30
19
votes
18
replies
15k
views
9 follow
vcf to bam
vcf
bam
updated 10 months ago by
berndmann
▴ 10 • written 8.6 years ago by
Madhuri Haque
▴ 20
46
votes
13
replies
15k
views
13 follow
Tutorial:
Methylation Analysis Tutorial in R - Part 1
R
cancer
methylation
updated 7 weeks ago by
Konstantinos
• 0 • written 3.6 years ago by
Hamid Ghaedi
3.2k
28
votes
19
replies
15k
views
10 follow
How To Generate Mutations In Sequences Of A Fasta File?
fasta
python
mutation
sequence
updated 10 months ago by
Ram
43k • written 12.6 years ago by
Geparada
★ 1.5k
8
votes
11
replies
15k
views
10 follow
Number of Threads for BWA MEM
bwa
updated 9 months ago by
GenoMax
142k • written 7.0 years ago by
haiying.kong
▴ 360
6
votes
13
replies
15k
views
8 follow
Split a VCF file into individual sample files
VCF
written 9.1 years ago by
win
▴ 970
10
votes
13
replies
15k
views
6 follow
Cluster sub-set analysis using Seurat
seurat
single-cell
updated 4 months ago by
j.gleixner
▴ 20 • written 3.8 years ago by
singcell
• 0
25
votes
11
replies
15k
views
10 follow
Retrieve GFF3 file from ncbi
gff3
ncbi
efetch
updated 3 months ago by
MirianT_NCBI
▴ 720 • written 6.2 years ago by
john
▴ 130
13
votes
15
replies
15k
views
7 follow
Error in while (change > conv) { : missing value where TRUE/FALSE needed
Combat
Batch-effect
RNA-Seq
updated 11 weeks ago by
Ram
43k • written 6.6 years ago by
lessismore
★ 1.3k
33
votes
3
replies
15k
views
Tool:
Aligning Sequence Reads, Clone Sequences And Assembly Contigs With Bwa-Mem
bwa
ngs
updated 10 months ago by
Ram
43k • written 11.1 years ago by
lh3
33k
65
votes
15
replies
14k
views
Tutorial:
Which human reference genome should I use?
assembly
genome
alignment
updated 11 months ago by
Ram
43k • written 5.6 years ago by
finswimmer
16k
57
votes
35
replies
14k
views
9 follow
How to get sample names and genotype for SNP in multi-sample VCF file
SNP
genotype
GATK
updated 7 months ago by
Kevin Blighe
87k • written 6.2 years ago by
hellbio
▴ 520
20
votes
10
replies
14k
views
8 follow
Test Whether The Variance In A Group Is Lower Than In Another
statistics
r
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Giovanni M Dall'Olio
28k
11
votes
31
replies
14k
views
6 follow
How to concatenate multiple fasta file
sequence
genome
updated 11 months ago by
doggie
• 0 • written 5.7 years ago by
fec2
▴ 50
5
votes
4
replies
14k
views
How to calculate the Position Weight Matrix score?
pssm
pwm
updated 11 months ago by
Ram
43k • written 7.1 years ago by
jordidebruin
• 0
28
votes
13
replies
14k
views
Taxonomy Of Blast Hits
blast
taxonomy
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Darked89
4.6k
13
votes
5
replies
14k
views
How to combine chromosome vcf files
Assembly
alignment
next-gen
genome
updated 8 months ago by
Pierre Lindenbaum
161k • written 5.9 years ago by
williamsbrian5064
▴ 510
16
votes
20
replies
14k
views
7 follow
Extracting allele, Genotype from VCF file
vcf
updated 10 months ago by
Ram
43k • written 6.0 years ago by
sukhjindermultani85
▴ 20
2
votes
7
replies
14k
views
How too choose outgroup for rooting a phylogenetic tree?
phylogeny
sequence
alignment
updated 5 months ago by
andre.arrudalima
▴ 60 • written 9.0 years ago by
dago
★ 2.8k
11
votes
7
replies
14k
views
Tutorial:
Removing rows with duplicate values based on 1 or more key values - linux awk
awk
linux
bash
updated 11 months ago by
Ram
43k • written 6.6 years ago by
Kevin Blighe
87k
26
votes
50
replies
14k
views
8 follow
Tool:
Retrieve a subset of FASTA from large Illumina multi-FASTA file
fasta
multi-fasta
illumina
updated 10 months ago by
Ram
43k • written 7.9 years ago by
hcwang
▴ 50
24
votes
6
replies
14k
views
How To Convert Uniprot Ids To Ensembl Gene/Transcript Ids
uniprot
updated 7 months ago by
Ram
43k • written 11.6 years ago by
learnerforever
▴ 520
17
votes
16
replies
14k
views
10 follow
How to extract the longest isoform from multi fasta file
perl
extract
fasta
python
isoform
updated 4 weeks ago by
Madeleine
• 0 • written 9.8 years ago by
jon.brate
▴ 310
17
votes
3
replies
14k
views
Getting Sequence Based On Chromosome No And Coordinates From Whole Genome Fasta File
sequence
updated 10 months ago by
Ram
43k • written 12.1 years ago by
Anurag
▴ 20
15
votes
12
replies
14k
views
How can I convert position to SNP ID
SNP
translation
gwas
updated 4 months ago by
18811581778
• 0 • written 6.0 years ago by
Jenny Han
▴ 10
19
votes
11
replies
14k
views
10 follow
How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
utr
updated 7 days ago by
cmdcolin
★ 3.8k • written 10.8 years ago by
J.F.Jiang
▴ 920
4
votes
4
replies
14k
views
Heatmap with custom gene labels annotated on the rows
differential-gene-expression
RNAseq
heatmap
updated 24 days ago by
Ram
43k • written 4.7 years ago by
bioinforesearchquestions
▴ 370
12
votes
11
replies
14k
views
6 follow
Make A Dotplot From Blast Alignment
blast
alignment
updated 4 months ago by
shelkmike
★ 1.2k • written 10.5 years ago by
mogrob.sanit
▴ 60
10
votes
6
replies
14k
views
7 follow
How To Identify The 16S Rrna Gene Sequence In A Genome
updated 15 days ago by
colindaven
6.4k • written 10.9 years ago by
Ontheway
▴ 10
12
votes
19
replies
14k
views
11 follow
SnpMatrix from VCF file
VCF
Eqtl
MatrixEQTL
SnpMatrix
vcftools
updated 7 weeks ago by
pmiller
▴ 10 • written 7.1 years ago by
Dhana
▴ 110
36
votes
16
replies
14k
views
8 follow
How to identify 16s sequences from binning data(contigs)?
genome
Assembly
sequence
blast
updated 10 months ago by
Kermit
▴ 90 • written 8.6 years ago by
liuyifan2014
▴ 110
4
votes
5
replies
14k
views
Take A Subset Of A Fastq Paired-End Sample
paired-end
fastq
rna-seq
illumina
updated 11 months ago by
Ram
43k • written 11.1 years ago by
dfernan
▴ 760
50
votes
16
replies
14k
views
12 follow
Tool:
Omictools: A didactic directory for omic data analysis (NGS, microarray, PCR, MS, NMR)
pcr
software
ngs
updated 10 months ago by
Ram
43k • written 10.6 years ago by
arnaud.desfeux
▴ 450
1
vote
7
replies
14k
views
A problem with download SRA using SRA toolkit
SRAtoolkit
NCBI
SRA
updated 10 months ago by
Ram
43k • written 4.2 years ago by
reza
▴ 300
3
votes
4
replies
14k
views
Python bioinformatics mini project ideas
programming
python
project
updated 11 months ago by
Ram
43k • written 6.2 years ago by
Galaxy123
▴ 20
39
votes
21
replies
14k
views
10 follow
Forum:
Orientation of PE reads a review of --fr --ff and --rf meanings
RNA-Seq
updated 11 months ago by
Ram
43k • written 5.5 years ago by
Juke34
8.6k
26
votes
22
replies
13k
views
10 follow
Tool:
BBSketch - A Tool for Rapid Sequence Comparison
minhash
sketch
bbmap
blast
updated 11 months ago by
Ram
43k • written 7.2 years ago by
Brian Bushnell
20k
17
votes
14
replies
13k
views
10 follow
Converting Ab1 Trace Files Into Scf Trace Files
sequence
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Will
4.5k
30
votes
6
replies
13k
views
What Are Some Good Free Bioinformatics And Computational Biology Books?
books
online
updated 5 months ago by
Ram
43k • written 14.0 years ago by
hadasa
★ 1.0k
17
votes
3
replies
13k
views
Repeat masker bed file
genome
updated 9 weeks ago by
GenoMax
142k • written 7.4 years ago by
jh
▴ 40
11
votes
2
replies
13k
views
Tool:
Multiplex PCR Primer Design Tools
multiplex-PCR
updated 10 months ago by
Ram
43k • written 6.7 years ago by
Shicheng Guo
★ 9.4k
31
votes
22
replies
13k
views
6 follow
Tool:
SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
FASTQ
SeqKit
FASTA
updated 10 months ago by
Ram
43k • written 7.6 years ago by
shenwei356
8.5k
18
votes
10
replies
13k
views
7 follow
One-way ANOVA in R for many observations
R
updated 3 months ago by
crystalineocean
• 0 • written 6.3 years ago by
darzenis
▴ 60
10
votes
13
replies
13k
views
6 follow
How to annotate only selected genes on a heatmap
R
updated 8 months ago by
GenoMax
142k • written 6.9 years ago by
h.fushimi.x689
▴ 40
1,000 results • Page
5 of 20
Recent Votes
Merging a large number of VCF files
A: Merging a large number of VCF files
A: pulling snps from vcf file using ids
pulling snps from vcf file using ids
Comment: No INFO/info value in headers
how to combine multiple RNAseq count files into a single dataframe in R and unix
Comment: Greatly speed up conda by using mamba
Recent Locations •
All
United States,
2 minutes ago
India,
10 minutes ago
Australia,
12 minutes ago
United States,
21 minutes ago
United States,
22 minutes ago
USA,
27 minutes ago
United States,
27 minutes ago
Recent Awards •
All
Popular Question
to
SHN
▴ 40
Popular Question
to
Rob
▴ 170
Scholar
to
GenoMax
142k
Popular Question
to
curious
▴ 750
Popular Question
to
M.
▴ 30
Student
to
carolofharvest
▴ 30
Commentator
to
e.r.zakiev
▴ 210
Recent Replies
Answer: Force PLINK2 to neglect chrX as the sex chromosome
by
chrchang523
10k
(cross-posted from https://groups.google.com/g/plink2-users/c/Qphx_6BpPII ) You need to use --chr-set, not --allow-extra-chr, to specify…
Answer: Easy way to find out which allele is minor allele from bed file?
by
chrchang523
10k
This question does not make sense. If you care about allele-order "information [being] lost in downstream applications", REF/ALT is the ob…
Answer: visualize GSEA
by
bk11
★ 2.4k
I have made some edits in your code basically changing the position of text and commented out the line `data$text_pos <- ifelse(data$NES > …
Comment: Differential Expression Analysis using DESeq2 in R
by
swbarnes2
14k
Pictures of code are useless. You were told to paste the code and use the 0101 button. Can you explain why you decided not to do that? If…
Comment: Differential Expression Analysis using DESeq2 in R
by
Erina
• 0
![Here is the code I am using for the analysis][1] [1]: /media/images/8a511904-6ae8-47f5-b647-ee15b02b
Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
by
swbarnes2
14k
In paired end sequencing, every read has a mate, and the flags all together tell you not only what is up with the read you are looking at, …
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
Mbofire
• 0
I need assistance don't know what to do next after signing up
Comment: Easy way to find out which allele is minor allele from bed file?
by
curious
▴ 750
According to the link: "When *generating* such filesets, PLINK 1.x defaults to swapping the alleles whenever A1's frequency is above (not …
Comment: TaxID mapping file
by
GenoMax
142k
nodesDB file should have been installed if you had used "Install" script for `blobtools` according to : https://blobtools.readme.io/docs/ta…
Comment: Parametric or non-parametric tests for qPCR significance testing between treatme
by
e.r.zakiev
▴ 210
obviously if the values are really sampled from a (quasi) normally-distributed values, then n doesn't matter, he could use t-test even with…
Comment: Converting CRAM to FastQ
by
Maverick
▴ 10
Understood Thank you!
Comment: Converting CRAM to FastQ
by
GenoMax
142k
You can use any reference that you like at this point. Since you are planning to use GATK, you can get their version from the resource bund…
Comment: Converting CRAM to FastQ
by
Maverick
▴ 10
![enter image description here][1]I was able to get my fastq files. I can see that my reference files are cached in a hts-ref directory but…
Comment: Differential Expression Analysis using DESeq2 in R
by
swbarnes2
14k
Okay, that shows us the problem, but not what we need to solve it. But, for instance, are you sure that period after the sample name shou…
Comment: Easy way to find out which allele is minor allele from bed file?
by
bk11
★ 2.4k
In the case of MAF = 0.5, I think A1 is still the minor allele. You can check the discussion in this [link][1]. [1]: https://groups.goo…
Traffic: 1461 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6