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: Votes
Rank
Views
Votes
Replies
3
votes
5
replies
1.5k
views
Trouble with best practices
samtools
WES
NGS
GATK
updated 11 months ago by
Ram
43k • written 6.2 years ago by
erarroji
• 0
3
votes
3
replies
872
views
from fasta to gtf format?
gtf
DE
fasta
updated 3 months ago by
e.r.zakiev
▴ 210 • written 3.0 years ago by
debitboro
▴ 260
3
votes
5
replies
1.1k
views
I have a pair of read files where each is a mixed pool of reads from the Linked-read technology and Illumina short-read technology. Any suggestion on…
NGS
clc-genomics
illumina
WGS
updated 6 months ago by
Ram
43k • written 6 months ago by
Vijith
▴ 30
3
votes
5
replies
1.1k
views
kraken2 bacteria database 250GB+
metagenomics
16s
kraken2
kraken
updated 5 months ago by
GenoMax
142k • written 5 months ago by
10mz1
▴ 10
3
votes
7
replies
6.4k
views
Human reference files in HG38 GATK resource bundle
VCF
updated 11 months ago by
DareDevil
★ 4.3k • written 6.3 years ago by
win
▴ 970
3
votes
9
replies
988
views
Estimate sizes of repeats in a especific Gene
CGG
Fragile-X
11 months ago by
Rafael
▴ 10
3
votes
16
replies
12k
views
combining z-scores into a single z-score value
excel
R
statistics
updated 11 months ago by
Ram
43k • written 5.1 years ago by
Star
▴ 60
3
votes
5
replies
3.2k
views
GO annotation for rice in an R package
annotation
R
updated 3 months ago by
prity6459
• 0 • written 7.4 years ago by
djyjin
▴ 10
3
votes
3
replies
491
views
How to proceed after Kraken2 analysis
rnaseq
kraken
updated 5 months ago by
dthorbur
★ 1.9k • written 5 months ago by
pixie@bioinfo
★ 1.5k
3
votes
16
replies
1.5k
views
How to bring all reads to the same length? Any tool?
Read-length
Bed
updated 10 months ago by
Ram
43k • written 4.3 years ago by
Ankit
▴ 500
3
votes
1
reply
395
views
FastQC duplicates questions
FastQC
RNA-seq
8 months ago by
Beth
▴ 10
3
votes
6
replies
846
views
Read multiple vcf files into R
R
vcf
6 months ago by
sousapaulo16
▴ 20
3
votes
3
replies
745
views
[bwa_aln_core] calculate SA coordinate... script.sh: line 91: 183402 Killed
HPC
BWA
Alignment
updated 11 months ago by
Ram
43k • written 2.3 years ago by
qstefano
▴ 20
3
votes
12
replies
971
views
why 99% reads failed to align in mir-seq analysis?
Fastqc
bowtie1
miRNA-seq
alignment
differential-expression-analysis
3 months ago by
mohammadhassanj
▴ 260
3
votes
9
replies
802
views
Understanding this analysis pipeline
reads
updated 10 months ago by
Ram
43k • written 10 months ago by
artemchuki
• 0
3
votes
2
replies
409
views
t-test by row
R
t-test
updated 5 months ago by
dthorbur
★ 1.9k • written 5 months ago by
sooni
▴ 20
3
votes
3
replies
515
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
updated 14 days ago by
swbarnes2
14k • written 15 days ago by
noodle
▴ 580
3
votes
6
replies
811
views
Annotating genome based on Sequence
genome
annotation
updated 5 months ago by
Darked89
4.6k • written 6 months ago by
buhbs
▴ 30
3
votes
9
replies
691
views
STARsolo seg fault without readMapNumber flag
STAR
RNA-seq
STARsolo
Velocyto
updated 6 months ago by
Ram
43k • written 6 months ago by
rbronste
▴ 420
3
votes
3
replies
526
views
How to add value of column to barchart on hover?
R
ggplot
ggplotLy
updated 8 months ago by
Trivas
★ 1.7k • written 8 months ago by
Manuel
▴ 10
3
votes
6
replies
970
views
Embryo transcriptome
database
transcriptome
SRA
updated 11 months ago by
Basti
★ 2.0k • written 11 months ago by
firefox91
• 0
3
votes
3
replies
342
views
learning bioinformatics
course
learning
updated 3 months ago by
Ram
43k • written 3 months ago by
sevda
• 0
3
votes
5
replies
1.3k
views
Running purge_dups on a hybrid assembly (optical mapping + reads)
pacbio
purge_dups
Assembly
bionano
updated 7 months ago by
colindaven
6.4k • written 3.2 years ago by
pablo
▴ 300
3
votes
5
replies
197
views
Generating mpileup file using samtools
mpileup
samtools
updated 20 hours ago by
Joe
21k • written 1 day ago by
Ruqaiya
• 0
3
votes
2
replies
313
views
Seeking Guidance on How to Annotate Unusual Cell Populations in Single-Cell Data
Transcriptomics
Single-Cell
updated 28 days ago by
Ram
43k • written 9 weeks ago by
Daddy
▴ 20
3
votes
2
replies
1.2k
views
DESeq2 design and Batch effects
RNA-Seq
batch-effect
DESeq2
updated 16 days ago by
Ram
43k • written 4.4 years ago by
baldissera152
▴ 10
3
votes
19
replies
1.5k
views
Systematic errors at the end and beginning of reads in NGS panels
NGS
error
panels
sequencing
updated 10 months ago by
Asaf
10k • written 10 months ago by
captainlabman
▴ 20
3
votes
1
reply
695
views
How do I use the new human pangenome reference to discover SNV and SV.
pangenome
reference
graph
vg
11 months ago by
Pierre Lindenbaum
161k
3
votes
7
replies
1.1k
views
Use giraffe in vg
giraffe
vg
updated 9 months ago by
Jordan M Eizenga
▴ 460 • written 10 months ago by
Michal
• 0
3
votes
7
replies
3.2k
views
vcf filter for FORMAT argument (DP/GQ/GQX > 30) multiple (380) vcf file
vcffilter
vcftools
sequencing
updated 10 months ago by
Ram
43k • written 4.1 years ago by
IndyDNA
▴ 10
3
votes
6
replies
849
views
scRNA-seq: Consistent low number of cells and low fraction reads across the samples
scRNA-seq
cells
mRNA
expression
gene
updated 5 months ago by
jv
★ 1.8k • written 5 months ago by
newbee
▴ 40
3
votes
8
replies
2.0k
views
Kallisto mapping paired end
Kallisto
mapping
updated 11 months ago by
Ram
43k • written 2.2 years ago by
Dk
▴ 20
3
votes
8
replies
1.0k
views
Single read sequence from a .fasta file cannot be aligned/BLASTN-d to my reference
BLAST
bowtie2
BWA
alignment
8 months ago by
cheesefish21
▴ 10
3
votes
4
replies
656
views
Weighted analysis
RNA-seq
7 months ago by
Peter
• 0
3
votes
7
replies
510
views
How does kallisto handle multi mapped reads?
kallisto
updated 10 weeks ago by
dsull
★ 6.0k • written 10 weeks ago by
bioinfo
▴ 150
3
votes
7
replies
1.4k
views
VG Giraffe multi-mapped reads and definition for MAPQ score
vg
9 months ago by
Hendricks27
• 0
3
votes
4
replies
736
views
During alignment STAR has stopped at started alignment step
STAR
updated 7 months ago by
Ram
43k • written 8 months ago by
Santhi
• 0
3
votes
7
replies
1.4k
views
Find 3'UTRs for species
Assembly
alignment
updated 11 months ago by
Ram
43k • written 4.7 years ago by
Palgrave
▴ 110
3
votes
8
replies
636
views
Huge decrease of BUS records using bustools
single-cell
bustools
10X
9 weeks ago by
julien.wollbrett
• 0
3
votes
10
replies
1.2k
views
STAR index not working
STAR
RNA-Seq
7 months ago by
camillab.
▴ 160
3
votes
5
replies
1.1k
views
Neither pysam nor samtools reading HTTPS-sourced BAM file correctly
bam
pysam
samtools
updated 8 months ago by
Istvan Albert
100k • written 8 months ago by
Alex Reynolds
35k
3
votes
2
replies
4.8k
views
How to plot a circular clustered heatmap with dendrogram
circular heatmap
updated 9 months ago by
logbio
▴ 30 • written 4.5 years ago by
The
▴ 180
3
votes
6
replies
2.1k
views
Biopython TimeExceptionError how to handle?
biopython
entrez
updated 11 months ago by
Ram
43k • written 6.5 years ago by
Xylanaser
▴ 80
3
votes
5
replies
667
views
ATAC-Seq and featureCounts
ATAC-Seq
featureCounts
updated 3 months ago by
ATpoint
82k • written 4 months ago by
qudrat.nii
▴ 10
3
votes
2
replies
1.1k
views
Creating a genotype matrix for BeviMed
snp
genome
Bayesian
updated 11 months ago by
Ram
43k • written 4.3 years ago by
tacrolimus
▴ 140
3
votes
5
replies
755
views
STAR error with a loop
STAR
RNA
transcriptomics
updated 11 months ago by
Ram
43k • written 17 months ago by
luzglongoria
▴ 50
3
votes
4
replies
4.1k
views
What are the Pros and Cons of working in Bioinformatics???
career
bio
updated 11 months ago by
Ram
43k • written 6.2 years ago by
scottschu97
▴ 20
3
votes
2
replies
333
views
Illumina reads to be processed and prepared for reference genome alignment
genome
alignment
trimming
next-gen
Illumina
updated 3 months ago by
shelkmike
★ 1.2k • written 3 months ago by
Veselina
• 0
3
votes
4
replies
781
views
Downstream analysis with DEseq2 normalization
DEseq2
integration
5 months ago by
QX
• 0
3
votes
5
replies
1.5k
views
Uniprot API access to download .pdb files
PDB
API
Python
Uniprot
11 months ago by
BioGrad321
• 0
1,000 results • Page
5 of 20
Recent Votes
Comment: Help with choosing a model species for Augustus for a de novo assembled genome.
A: After read mapping, count exons or genes?
After read mapping, count exons or genes?
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
Recent Locations •
All
Poland,
3 minutes ago
Italy,
4 minutes ago
Turkey,
4 minutes ago
State College, PA, Penn State,
5 minutes ago
Russia,
8 minutes ago
United Kingdom,
10 minutes ago
Australia,
11 minutes ago
Recent Awards •
All
Popular Question
to
Thanujay S
• 0
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
Recent Replies
Comment: Segmentation error while using a tool
by
Thanujay S
• 0
Hey @Ruqaiya! Can you please give more details on why smalt is opted here? According to what I can see, the tool has become obsolete! Why …
Comment: Extracting mutation status from MAF files - TCGA
by
Thanujay S
• 0
Hey! Can you explain the question further? What have you tried?
Comment: Downloading older version of a tool
by
Ruqaiya
• 0
I tried the 2nd option only. I got the files of older version from the author but that version isn't working on my WSL, it's showing Segmen…
Comment: filtering before dada2
by
GenoMax
142k
> I encountered a significant decrease in the percentage of merged reads. You can check with `bbmerge.sh` from BBMap suite to see how many…
Comment: HCL database download
by
GenoMax
142k
Isn't the download link available above the plot: http://bis.zju.edu.cn/HCL/data/DGE/Adult-Transverse-Colon1_dge.txt.gz
Comment: fastq screen aligner no specified.
by
GenoMax
142k
You need to change this configuration file to point it to the location where the aligner executable can be found. So as an example followi…
Answer: Design matrix Differential expression analysis
by
Gordon Smyth
★ 7.1k
The expression levels do not change but the way that you have parametrized the expression levels does change. The two design matrices give…
Comment: The GDC Legacy Archive is retiring soon.
by
lcordeiro
▴ 40
Hi Zhenyu, do you happen to know how I can download metadata for some of the legacy files? I downloaded several IDATs from the legacy data …
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
Traffic: 1364 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