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
2 of 20
Sort: Views
Rank
Views
Votes
Replies
0
votes
16
replies
3.8k
views
Gff to genbank - feature is missing
DNA
augustus
gff3
genbank
updated 11 months ago by
Ram
43k • written 5.9 years ago by
rororo
▴ 10
0
votes
7
replies
3.8k
views
MUMmer plot visualization
MUMmer plot
updated 9 weeks ago by
Carlos
• 0 • written 3.2 years ago by
rthapa
▴ 90
2
votes
4
replies
3.7k
views
Converting different annotation file formats (GTF/GFF/BED) to each other
rna-seq
next-gen
updated 6 months ago by
alejandrogzi
▴ 120 • written 6.6 years ago by
Javad
▴ 150
2
votes
4
replies
3.7k
views
6 follow
Gene correlation with single cell data?
RNA-Seq
gene
updated 3 months ago by
Quang
• 0 • written 3.1 years ago by
theodore.killian
▴ 30
10
votes
7
replies
3.7k
views
What is Pathway Analysis?
database
analysis
ontology
pathway
updated 10 months ago by
Ram
43k • written 8.0 years ago by
Pranavathiyani G
▴ 330
5
votes
8
replies
3.6k
views
Many Differentially expressed genes but few GO terms
differential-gene-expression
RNA-seq
gene-ontology
updated 14 days ago by
Ram
43k • written 6.5 years ago by
firestar
★ 1.6k
5
votes
35
replies
3.6k
views
Reduce set of chromosomes in Pangenome graph
pangenome
vg
updated 9 months ago by
Jordan M Eizenga
▴ 460 • written 10 months ago by
anivlete
• 0
1
vote
2
replies
3.5k
views
rna-seq analysis with Salmon - how to Import and summarize using tximport
RNA-Seq
salmon
tximport
updated 6 months ago by
camillab.
▴ 160 • written 4.7 years ago by
woojoy14
▴ 10
4
votes
12
replies
3.5k
views
How to read VCF (v4.1) file? (student project) (samtools version 0.1.19)
variant-calling
samtools
VCF
BCF
updated 28 days ago by
Ram
43k • written 5.5 years ago by
c.clarido
▴ 110
0
votes
2
replies
3.5k
views
dN/dS ratio from .vcf file
synonmous
non-synomous
mutation
updated 6 months ago by
rohitsatyam102
▴ 840 • written 5.4 years ago by
shubhra.bhattacharya
▴ 140
4
votes
8
replies
3.5k
views
How to reduce the number of SNPs for the Lositan software
Lositan
SNP
updated 10 months ago by
Ram
43k • written 9.5 years ago by
zhaojianli198322
• 0
3
votes
4
replies
3.4k
views
any recommended tools for batch effect and normalization not written in R?
R
RNA-Seq
combat
python
batch-effect
updated 5 days ago by
Ram
43k • written 7.1 years ago by
dyollluap
▴ 310
1
vote
8
replies
3.4k
views
Best way to address different batches of RNA-seq
sequence
RNA-Seq
RPKM
Fold-Change
batch-effect
updated 6 days ago by
Ram
43k • written 7.0 years ago by
tud55122
▴ 20
2
votes
10
replies
3.4k
views
RepeatMasker: createLib() Error
RepeatMasker
updated 6 days ago by
Ram
43k • written 7.4 years ago by
linda
• 0
3
votes
4
replies
3.4k
views
Switch ref/alt alleles vcf file
SNP
vcf
sequencing
updated 3 months ago by
jvt
• 0 • written 4.4 years ago by
mdstep
▴ 20
1
vote
1
reply
3.4k
views
Problem with PGDSpider v 2.1.0.2
alignment
updated 10 months ago by
sackettl
▴ 20 • written 7.8 years ago by
maria.segovia.ramirez
▴ 10
0
votes
4
replies
3.4k
views
Polyploidy found, and not supported by vcftools
SNP
updated 10 months ago by
Ram
43k • written 5.2 years ago by
sambioinfo2018
▴ 20
1
vote
2
replies
3.4k
views
How to convert FASTA to NEXUS in Python
fasta
biopython
nexus
updated 9 months ago by
Ram
43k • written 3.7 years ago by
adrian18_07
▴ 10
0
votes
0
replies
3.4k
views
Find conserved blocks and extract subalignment with Python
multiple-sequence-alignment
python
updated 11 months ago by
Ram
43k • written 7.0 years ago by
Kevin D
▴ 30
1
vote
14
replies
3.3k
views
How to convert Haplotypes file to PLINK format data
R
plink
updated 11 months ago by
Ram
43k • written 5.9 years ago by
bha
▴ 80
2
votes
12
replies
3.3k
views
WCGNA installation help
R
WGCNA
updated 11 weeks ago by
Ram
43k • written 4.9 years ago by
prekrish
• 0
1
vote
6
replies
3.3k
views
Filter VCF file
snp
next-gen
updated 10 months ago by
Ram
43k • written 7.8 years ago by
sukesh1411
▴ 30
0
votes
12
replies
3.3k
views
comparative analysis of two strains of bacteria's genomes
genome
gene
updated 11 months ago by
Ram
43k • written 6.5 years ago by
fonteneaudam
▴ 20
1
vote
9
replies
3.3k
views
build databses for genome using snpEff
annotation
SNP
snpEff
updated 8 months ago by
nehakhilwani18
• 0 • written 5.7 years ago by
StudentBio
• 0
4
votes
4
replies
3.3k
views
Unable to install Autogrid4
autogrid
software-error
autogrid4
updated 11 months ago by
Ram
43k • written 3.1 years ago by
roybatty269
• 0
0
votes
1
reply
3.3k
views
Cutadapt 1.9.1 error
cutadapt
next-gen
updated 10 months ago by
Ram
43k • written 8.2 years ago by
vishweshwaransridhar
▴ 10
2
votes
5
replies
3.3k
views
How to output colored alignment from clustal omega stand alone tool?
Clustal Omega
Colored alignment
updated 8 months ago by
Joe
21k • written 4.7 years ago by
MB
▴ 50
20
votes
17
replies
3.2k
views
How to add "transcript" feature to a gtf file?
gtf
updated 9 months ago by
1769mkc
★ 1.2k • written 3.2 years ago by
pomodoro_sinensis
▴ 110
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
0
votes
1
reply
3.2k
views
How to convert g.vcf to .vcf file
vcf
sequence
genome
alignment
updated 10 months ago by
Ram
43k • written 5.0 years ago by
Sakhaa
• 0
2
votes
10
replies
3.2k
views
6 follow
Split plink files by a number of SNPs
GWAS
SNP
plink
updated 6 months ago by
Raygozak
★ 1.4k • written 5.8 years ago by
kakukeshi
▴ 80
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
6
votes
6
replies
3.2k
views
ChIP-Seq Intensity Analysis
R
ChIP-Seq
updated 11 months ago by
Ram
43k • written 6.4 years ago by
solveforj
▴ 20
5
votes
7
replies
3.2k
views
8 follow
bwa mem -T (alignment score) not doing anything
SNP
genome
sequence
updated 6 months ago by
Istvan Albert
100k • written 5.9 years ago by
chris.bird
▴ 10
3
votes
6
replies
3.1k
views
samtools sort not working when using multiple threads
samtools
bam
updated 10 months ago by
Ram
43k • written 2.2 years ago by
bio_elle
▴ 10
0
votes
1
reply
3.1k
views
PSMC plot (Effective population size)
next-gen
updated 7 months ago by
1601693223
• 0 • written 8.4 years ago by
vicky
▴ 30
1
vote
7
replies
3.1k
views
RGT TypeError: unsupported operand type(s) for +: 'NoneType' and 'int'
RGT
TF-footprinting
ATAC-seq
updated 10 months ago by
Ram
43k • written 5.4 years ago by
grant.hovhannisyan
★ 2.6k
1
vote
10
replies
3.1k
views
How to specify/calculate subject coverage of the alignment (alignment of query[protein sequence] and subject[Nucleotide sequence]) in tBLASTn?
alignment
BLAST
tBLASTn
updated 11 months ago by
Ram
43k • written 5.1 years ago by
Kumar
▴ 120
0
votes
7
replies
3.1k
views
How much time should be expected for building a database by kraken2-build?
kraken2
updated 11 months ago by
Ram
43k • written 3.2 years ago by
thitrucminh.nguyen
• 0
0
votes
3
replies
3.1k
views
From FASTQ to clean BAM using GATK tutorial #6484
gatk
MergeBamAlignment
uBAM
bamclipper
updated 11 months ago by
Ram
43k • written 6.5 years ago by
lamteva.vera
▴ 220
2
votes
6
replies
3.1k
views
hisat2 :Killed (ERR): hisat2-align exited with value 137
RNA-seq
alignment
hisat2
updated 8 months ago by
Ram
43k • written 2.3 years ago by
iamsmor
• 0
0
votes
3
replies
3.1k
views
Rna-seq for differential expression analysis
differential-expression
transcriptome
updated 5 days ago by
Ram
43k • written 8.9 years ago by
siddharth.patel.153
• 0
3
votes
6
replies
3.0k
views
Which of the 4 SureSelect Agilent BED files to use with GATK haplotype caller?
gatk
variant calling
sureselect
updated 9 months ago by
LeandroF.
• 0 • written 4.2 years ago by
curious
▴ 750
3
votes
12
replies
3.0k
views
What is NCBI Gene ID, where to find it and how to convert to entrez ID?
RNA-Seq
updated 10 months ago by
Pegasus
▴ 100 • written 4.5 years ago by
mnazir
▴ 10
1
vote
5
replies
3.0k
views
Problem in running NOISeq-sim
NOISeq
RNA-Seq
updated 10 months ago by
Ram
43k • written 5.7 years ago by
jaspreetk.dhanjal
▴ 20
2
votes
3
replies
3.0k
views
RNA-seq batch effect correction
RNA-Seq
batch-effect
sequencing
updated 5 days ago by
Ram
43k • written 6.9 years ago by
endikavarela
• 0
0
votes
2
replies
3.0k
views
How to convert gbk file to roary tool acceptable gff3 format?
linux
bash
python
perl
updated 10 months ago by
Ram
43k • written 3.6 years ago by
Kumar
▴ 120
0
votes
1
reply
2.9k
views
RNA-seq compare FPKM's or fold change of different organisms
gene-expression
FPKM
RNA-seq
fold-change
updated 7 months ago by
Ram
43k • written 6.7 years ago by
jehu
▴ 30
1
vote
4
replies
2.9k
views
DBD::mysql::st execute failed: The table 'InplgOrthoInplg
orthomcl
ortho
ubuntu
mysql
updated 11 months ago by
Ram
43k • written 5.9 years ago by
wocana
▴ 20
6
votes
9
replies
2.9k
views
How to analyze the scRNA seq Fastq files from NCBI
SRAtool
Cellranger
NCBI
updated 10 months ago by
Ram
43k • written 2.3 years ago by
aimanbarki
▴ 20
1,000 results • Page
2 of 20
Recent Votes
Answer: Gene set enrichment analysis differences between 2020 and 2024
Answer: Gene set enrichment analysis differences between 2020 and 2024
Answer: Gene set enrichment analysis differences between 2020 and 2024
Comment: What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
Comment: TCGA2STAT Error: Firehose connection
Answer: HaplotypeCaller - only SNPs
Comment: Bwa sampe - BGI
Recent Locations •
All
Hong Kong,
1 minute ago
Singapore,
3 minutes ago
Pakistan,
5 minutes ago
India,
7 minutes ago
United States,
16 minutes ago
Whitefish, MT,
17 minutes ago
India,
18 minutes ago
Recent Awards •
All
Popular Question
to
subhiksha
▴ 30
Popular Question
to
v.berriosfarias
▴ 140
Popular Question
to
AdviceSeeker
• 0
Great Question
to
Ann
★ 2.4k
Scholar
to
marco.barr
▴ 80
Popular Question
to
Kash
▴ 110
Scholar
to
GenoMax
141k
Recent Replies
Comment: GTF file for Rhinolophus sinicus
by
atowns21
• 0
Ah gotcha. I guess what doesn't make sense to me is why a [paper][1] published in 2022 uses that reference genome. [1]: https://www.na…
Answer: Wilcox test using data slot (log normalized count values) of scRNA-seq between t
by
yxwucq
• 0
The best way is to generate a pseudo-bulk aggregation then apply edgeR or DESeq2. You can also directly use wilcoxon on sc-level, since man…
Comment: How to solve this RoseTTAFold colaboratory error?
by
Mensur Dlakic
★ 27k
There is a dedicated Discord group that deals with everything related to ColabFold and its derivatives. Below is an invitation to join that…
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
atowns21
• 0
Hmm, okay I'm not sure what is going on, but here is what I did: 1. Downloaded a single fastq: `parallel-fastq-dump --tmpdir . --threads …
Comment: What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
by
HyperEvo
• 0
Ok, thank you so much~
Comment: GTF file for Rhinolophus sinicus
by
GenoMax
141k
I was able to get the GTF file. I tried the fasta genome and it seemed to work but I did not complete the download. If you choose to ignore…
Comment: some error in building kraken2 database
by
Art1ess
• 0
I have 2 files output, no error logs... the .kreport file: 100.00 160136511 160136511 U 0 unclassified head .res…
Comment: TCGA2STAT Error: Firehose connection
by
LauferVA
4.2k
agree. from a data-centric (rather than software centric) standpoint, it shouldn't be hard to get the TCGA data you are looking for from o…
Comment: Redirection of Duplicate PMIDs
by
LauferVA
4.2k
yep. in this case id definitely start with the grant numbers themselves as others have indicated. i did not recommend this before due to un…
Comment: GTF file for Rhinolophus sinicus
by
atowns21
• 0
This download doesn't seem to work for me. There is a message on the website saying "Warning: contaminated. Status: RefSeq GCF_001888835.1 …
Answer: HaplotypeCaller - only SNPs
by
Pierre Lindenbaum
161k
Filter the vcf dowstream after haplotypecaller using bcftools or gatk variantfiltration
Answer: Gene set enrichment analysis differences between 2020 and 2024
by
geneontologyhelp
▴ 380
We have releases about monthly in order to keep our data accurate and reflect current understanding. In 4 years, there have been about 40 r…
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
GenoMax
141k
Let us know when you find out. Would be a useful thing to know what the data looks like.
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
atowns21
• 0
Yes, that is a very good idea. Thanks for the help!
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
GenoMax
141k
Only thing would be to try them out. See if you can detect them in the data you have. You could also simply look for unique representativ…
Traffic: 1874 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