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178 results • Page
1 of 4
Sort: Votes
Rank
Views
Votes
Replies
64
votes
25
replies
57k
views
22 follow
Download All The Bacterial Genomes From Ncbi
ncbi
updated 10 hours ago by
GenoMax
142k • written 11.4 years ago by
rehma.ar
▴ 290
22
votes
15
replies
10k
views
12 follow
Alternatives To Liftover
liftover
genome
mapping
updated 4 days ago by
Thanujay S
• 0 • written 12.5 years ago by
woemler
▴ 170
20
votes
17
replies
13k
views
17 follow
Best Practice On Variant Discovery For Bacteria?
updated 3 days ago by
Ruqaiya
• 0 • written 11.9 years ago by
lh3
33k
19
votes
15
replies
2.3k
views
Forum:
What is the amount of sequencing data produced annually?
data
research
sequencing
updated 6 days ago by
Mohamed
• 0 • written 8 months ago by
vincenthus
▴ 70
19
votes
10
replies
7.4k
views
7 follow
T2T-CHM13 "complete" human genome gff/gtf annotation file
genomics
written 3.0 years ago by
noodle
▴ 590
13
votes
18
replies
6.3k
views
9 follow
Blastn, need help to increase speed
RNA-Seq
blastn
blast+
updated 5 days ago by
Dunois
★ 2.5k • written 3.3 years ago by
chiachoong_leong93
▴ 20
11
votes
13
replies
6.7k
views
7 follow
log2 fold change in RNA-seq analysis
fold
log2
change
updated 4 days ago by
May Ling
• 0 • written 2.4 years ago by
wmsalsah
▴ 10
8
votes
10
replies
3.2k
views
8 follow
Venter Genome Vcf
vcf
updated 6 hours ago by
Jeremy Leipzig
22k • written 10.1 years ago by
win
▴ 980
8
votes
7
replies
3.9k
views
6 follow
What is the best practice of scRNA workflow for multiple patients and samples using Seurat
scRNA
sing-cell RNA
seurat
integrate
updated 1 day ago by
Picasa
▴ 640 • written 3.5 years ago by
SupBioInformatics
▴ 70
7
votes
13
replies
847
views
7 follow
Forum:
Ideal PC configurations and operating system for bioinformatics laboratory
PC
updated 4 days ago by
i.sudbery
19k • written 4 weeks ago by
Estevão
▴ 10
7
votes
3
replies
13k
views
Z score in RNAseq
RNA-Seq
Zscore
updated 4 days ago by
Akash D
▴ 60 • written 6.5 years ago by
rob.costa1234
▴ 310
5
votes
3
replies
5.8k
views
Attempt to set 'rownames' on an object with no dimensions
R
microbiome
spieceasi
updated 1 day ago by
GenoMax
142k • written 3.6 years ago by
ks.sholohova
▴ 30
5
votes
3
replies
214
views
FastQC interpretation - 16S sequencing
interpretation
amplicon
Fastqc
16S
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Christopher
▴ 10
5
votes
10
replies
3.2k
views
Delete some INFO header lines and columns data
vcf
bash
vcftools
updated 1 hour ago by
tomas4482
▴ 400 • written 2.3 years ago by
pablo.goiko
• 0
5
votes
4
replies
5.2k
views
6 follow
Classic threshold for log2 fold change in RNA-seq experiment
RNA-Seq
updated 4 days ago by
May Ling
• 0 • written 3.9 years ago by
Mozart
▴ 330
4
votes
1
reply
235
views
PCA plot no distinct cluster. Only p < 0.05 indicates significant DEGs, while adj p < 0.05 does not.
RNA-seq
padj
p-value
updated 4 days ago by
swbarnes2
14k • written 4 days ago by
May Ling
• 0
4
votes
6
replies
433
views
Mouse or Rat Gene Expression Data Similar to GTEx
whole-body
expression
atlas
4 days ago by
Shicheng Guo
★ 9.4k
4
votes
6
replies
337
views
Error with BiocParallel. No barcodes files found
Barcodes
scRNA-seq
SingleCellExperiment
3 days ago by
bio_info
▴ 20
4
votes
6
replies
12k
views
Looking for differential gene expression between treatment, within a specific cluster (seurat)
seurat
updated 1 day ago by
jared.andrews07
★ 17k • written 4.7 years ago by
cook.675
▴ 230
4
votes
2
replies
233
views
Number of non-ATCG nucleotides replaced by Salmon
rna-seq
stringtie
salmon
updated 40 minutes ago by
Ram
44k • written 3 days ago by
Tonya S.
▴ 10
4
votes
9
replies
676
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
updated 6 days ago by
marco.barr
▴ 130 • written 12 days ago by
diqixiaoyaoer
▴ 20
4
votes
11
replies
967
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
6 days ago by
J
▴ 10
3
votes
5
replies
486
views
Practical Haplotype Graph v2 not finding correct paths
Pangenome
PHG
graph
6 days ago by
beantkapoor16
▴ 10
3
votes
7
replies
4.0k
views
Difference in Bismark output methylation call files and coverage files
RRBS
Bismark
DNA-methylation
updated 4 days ago by
Papyrus
★ 2.9k • written 3.9 years ago by
linelr
▴ 40
3
votes
2
replies
191
views
Multiplexing for pooled CRISPR screen sequencing
multiplex
CRISPR-screen
Illumina
5 days ago by
Tuấn Anh
• 0
3
votes
4
replies
205
views
Invalid CIGAR after using bam clipOverlap
validatesamfile
cigar
bam
clipoverlap
19 hours ago by
MboiTui
▴ 20
3
votes
2
replies
218
views
converting transcript IDs (Ensembl) to gene symbols in R
RNA-seq
updated 5 days ago by
GenoMax
142k • written 6 days ago by
ashkan
▴ 160
3
votes
2
replies
181
views
How to interpret this plotMDS of three disease clusters?
microarray
plotMDS
DEGs
updated 4 days ago by
ATpoint
82k • written 4 days ago by
egascon
• 0
3
votes
4
replies
352
views
Getting differential ChIP-seq peaks between conditions after calling consensus peaks
MAnorm
ChIP-seq
consensus
peaks
1 day ago by
Alexandra
• 0
3
votes
0
replies
129
views
Comparing ATAC-seq narrowPeak Files from Chicken and Mouse
liftOver
ATAC-seq
csaw
updated 6 days ago by
Ram
44k • written 6 days ago by
Rafael Soler
★ 1.2k
3
votes
1
reply
169
views
vg autoindex seems stuck after a week of running
vg
pangenome
updated 5 days ago by
Jouni Sirén
▴ 380 • written 5 days ago by
StevieP
▴ 10
3
votes
5
replies
380
views
How to scrape BioMart data from https://sorfs.ugent.be/ website
BioMart
updated 1 day ago by
Pierre Lindenbaum
162k • written 3 days ago by
QX
• 0
3
votes
3
replies
230
views
Unexpected read length from NGS
NGS
Illumina
3 days ago by
QX
• 0
3
votes
4
replies
496
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell
ambient-RNA
updated 3 days ago by
fracarb8
★ 1.7k • written 11 days ago by
txema.heredia
▴ 130
3
votes
10
replies
5.2k
views
6 follow
txt file to bigwig
MEME
bigwig
updated 5 hours ago by
ATpoint
82k • written 8.6 years ago by
tanni93
▴ 50
3
votes
4
replies
6.3k
views
MAUVE: No gene annotations in Genbank file alignments
software-error
MAUVE
RAST
genbank
alignment
updated 5 days ago by
pramach1
▴ 40 • written 9.8 years ago by
tptacek3050
▴ 70
3
votes
5
replies
453
views
Super ehancers
enhancers
updated 6 days ago by
jared.andrews07
★ 17k • written 25 days ago by
Oburah
• 0
3
votes
8
replies
882
views
Random Access remote BAM files
htslib
BAM
updated 5 days ago by
a.penatauber
• 0 • written 3 months ago by
Lucas R.F.
▴ 20
3
votes
6
replies
355
views
Problem in getting geo file through GEOQUERY
geoquery
Geo
updated 5 days ago by
Ram
44k • written 6 days ago by
anasjamshed
▴ 120
3
votes
3
replies
814
views
Cut&Run and heatmap
and
bowtie2
MACS2
updated 7 hours ago by
sogand
• 0 • written 13 months ago by
qudrat.nii
▴ 10
2
votes
6
replies
2.2k
views
Tool:
Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
biomart
annotation
Ensembl
updated 12 hours ago by
Mike Smith
★ 2.0k • written 2.8 years ago by
Shred
★ 1.4k
2
votes
4
replies
1.1k
views
samtools mpileup error - 1 samples in 1 input files
samtools
BAM
mpileup
SAM
updated 8 hours ago by
Damla
• 0 • written 2.4 years ago by
joseph.kelly.94
▴ 10
2
votes
0
replies
221
views
Job:
Permanent Position as Researcher/Computational Biologist at the National Genomics Infrastructure (Sweden)
Genomics
Sequencing
Sweden
Stockholm
SciLifeLab
4 days ago by
Matthias Zepper
4.6k
2
votes
5
replies
306
views
Z score
Z-score
updated 4 days ago by
Ram
44k • written 4 days ago by
Akash D
▴ 60
2
votes
3
replies
314
views
How do we do quantification using stringtie merge option for all the merged samples generated.
stringtie
quantification
17 hours ago by
Varsha
• 0
2
votes
4
replies
351
views
Functional enrichment analysis for unique gene IDs
RNA-SEQ
8 hours ago by
Pegasus
▴ 100
2
votes
11
replies
767
views
ComplexHeatmap - How to change fontsize of rowAnnotation
r
ComplexHeatmap
updated 1 day ago by
Ram
44k • written 10 days ago by
hannes.bongartz
• 0
2
votes
7
replies
609
views
KEGG analysis in R
KEGG
clusterProfiler
Zea-mays
updated 5 days ago by
letizia.ottaviani
• 0 • written 6 weeks ago by
sansan_96
▴ 90
2
votes
4
replies
1.2k
views
Is it possible to run CibersortX with a very small number of samples?
cibersortx
4 days ago by
Aspire
▴ 330
2
votes
6
replies
326
views
How to get the ratio of allele counts from GATK derived VCF file?
Freebayes
GATK
SNP
VCF
4 days ago by
anikcropscience
▴ 230
178 results • Page
1 of 4
Recent Votes
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Comment: bbmerge (bbmap) ~ error with insert size file output
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Answer: Salmon ~ Effective Length
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6.6k
Salmon will compute the fragment length distribution based on the (probabilistically weighted) implied distance between the fragment ends g…
Comment: Error with Pheatmap ()
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Show us the output to ```r mat.z[1:10,1:10] any(is.infinite(mat.z)) ```
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This code will NOT work. Please use `bcftools annotate -x ^INFO/RPBZ,INFO/MQBZ,INFO/BQBZ in.vcf.gz > out.vcf` instead. Prior to this st…
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I would be contacting the company as a start, and getting access to your raw data.
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Please stop asking questions in existing threads. Delete these two comments and open a new question with all the necessary details to under…
Comment: Venter Genome Vcf
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22k
there are some violations in this VCF: - Invalid count number, with fixed count the number should be 1 or higher: key=INFO name=TSA type=St…
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sogand
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Hi all, I am new to cut&run or any peak-related analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt …
Comment: Functional enrichment analysis for unique gene IDs
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Since the locus-tags are unclassified, I used the CDS instead of the locus-tags to retrive their ensembl IDs using ensembl bacteria website…
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Could you find a solution to your problem?
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Hi all, I am new to these kind of analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt files that are r…
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Hello! So, what is the correct design ? You will have to ask yourself, what do you want to compare? WT vs mut? If so it will be strain. 2…
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1) you have to say what question you are actually asking. There are few different designs that would address different questions. 2) work…
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mmmm I am not sure. This is how I generate my consnsus sequence # Get consensus fastq file samtools mpileup -uf KT992094.1.fasta…
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142k
Why do you have those N's at the beginning of the sequence? If the remainder of the sequence matches 100% then the initial N's may be wrong…
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