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178 results • Page
3 of 4
Sort: Rank
Rank
Views
Votes
Replies
1
vote
3
replies
241
views
Trimmomatic running but files containing purged reads are empty
fastqc
fastq
trimmomatic
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Wilber0x
▴ 50
0
votes
0
replies
106
views
How to find nucleotide changes and the predicted effect when comparing two genomes
BLAST
alignment
updated 5 days ago by
Ram
44k • written 5 days ago by
Melissa
• 0
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
0
votes
0
replies
121
views
Subset of ATAC-seq peaks has high variance
atac-seq
edgeR
R
normalization
4 days ago by
Tim
• 0
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
0
votes
0
replies
103
views
KEGG pathway enrichment analysis in Zea mays with R
KEGG
Zea-mays
R
updated 5 days ago by
Ram
44k • written 5 days ago by
letizia.ottaviani
• 0
0
votes
6
replies
291
views
from CRAM to fastq
FASTQ
WGS
CRAM
updated 5 days ago by
ATpoint
82k • written 5 days ago by
machaalani29
• 0
0
votes
0
replies
103
views
News:
Bioinformatic Analysis of Transposable Elements course
Genome-Annotation
TE
Manual-Curation
Transposable-Elements
updated 5 days ago by
Ram
44k • written 5 days ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
133
views
No output when converting transcript IDs to gene symbols
RNA-seq
updated 5 days ago by
Ram
44k • written 5 days ago by
ashkan
▴ 160
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
0
votes
0
replies
111
views
MAFFT alignment report
RNA
Alignment
MAFFT
Linux
updated 5 days ago by
Ram
44k • written 5 days ago by
Ghada
• 0
0
votes
3
replies
306
views
Kraken2 Custom Database non-deterministic results
Metagenomics
kraken2
updated 5 days ago by
colindaven
6.4k • written 7 days ago by
Bjorn
• 0
0
votes
1
reply
158
views
How to get 2 seurat objects into a DEseq
Seurat
DEseq
updated 5 days ago by
Ram
44k • written 6 days ago by
He11oJe11o
• 0
0
votes
0
replies
90
views
Rescaling normalized enrichment score (NES)
heatmap
5 days ago by
CTLong
▴ 110
0
votes
3
replies
219
views
Splitting query fasta file for Diamond Blastp make the process faster?
DIAMOND
3 days ago by
kmat
• 0
0
votes
1
reply
157
views
Mapping difference with BWA
variant-calling
samtools
bam
BWA
genomics
updated 5 days ago by
ATpoint
82k • written 5 days ago by
rj.rezwan
• 0
0
votes
0
replies
105
views
Kegg Pathways to Circos
Genomics
KEGG
Circos
6 days ago by
dlera.lozano
▴ 10
0
votes
0
replies
122
views
DIFFBIND boxplot results, p value not significant
DiffBind
ChIP-seq
5 days ago by
RD
▴ 10
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
0
votes
1
reply
185
views
Multi-ploid data in ANGSD and NGSadmix
ancestry
diploid
haploid
admixture
updated 6 days ago by
andersdetermig
▴ 20 • written 7 days ago by
Christopher
• 0
0
votes
2
replies
437
views
transanno liftvcf "Error: length of chromosome [chr] is not equal to length in chain file. Are you using correct reference?"
liftover
transanno
6 days ago by
ezz3
• 0
1
vote
10
replies
645
views
Add stats to the plot
R
5 days ago by
Ghada
• 0
0
votes
4
replies
248
views
Fewer sites in vcf than in reference genome despite Emit_All_Sites argument
GATK
UnifiedGenotyper
6 days ago by
shpak.max
▴ 50
2
votes
4
replies
281
views
Allele count of 2 for homoplasmic MT variants in VCF
Variant-Calling
GATK
VCF
5 days ago by
Arton
▴ 10
1
vote
3
replies
209
views
downloading chemical database from ChEMBL
ChEMBL
PyRMD
Virtual-Screening
updated 5 days ago by
GenoMax
142k • written 6 days ago by
s
• 0
0
votes
3
replies
195
views
Where are the illumina adapters on Trimmomatic take from?
rna-seq
trimmomatic
updated 6 days ago by
GenoMax
142k • written 6 days ago by
bioinfo
▴ 150
3
votes
2
replies
191
views
Multiplexing for pooled CRISPR screen sequencing
multiplex
CRISPR-screen
Illumina
5 days ago by
Tuấn Anh
• 0
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
4
replies
351
views
Functional enrichment analysis for unique gene IDs
RNA-SEQ
8 hours ago by
Pegasus
▴ 100
0
votes
2
replies
217
views
Comparing Analysis Strategies for scRNA-seq Data: Separate vs. Merged Analysis of Spleen Samples from Different Conditions
Seurat
scRNA-Seq
Single-Cell
6 days ago by
Shukai
• 0
1
vote
3
replies
211
views
Question about samtools view flags (paired reads vs. properly paired reads)
samtools
updated 6 days ago by
Pierre Lindenbaum
162k • written 6 days ago by
mrk
• 0
0
votes
3
replies
255
views
z-score of gene set
z-score
scRNA
gene-set
5 days ago by
Hien
• 0
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
0
votes
0
replies
111
views
Linking AMR Genes to Taxonomy in Soil Metagenomics
metagenomics
bacteria
wgs
AMR
resistome
updated 6 days ago by
GenoMax
142k • written 6 days ago by
LuciaNhu
• 0
1
vote
2
replies
196
views
How can we convert a vcf to fasta, so that I can blast some genes against that whole genome sequences?
blast
fasta
vcf
gene
updated 6 days ago by
Ram
44k • written 6 days ago by
Harshita
• 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
0
votes
0
replies
143
views
Job:
PhD position for metagenomics analysis at the University of Udine
metagenomics
updated 6 days ago by
Ram
44k • written 6 days ago by
Fabio Marroni
★ 3.0k
3
votes
5
replies
487
views
Practical Haplotype Graph v2 not finding correct paths
Pangenome
PHG
graph
6 days ago by
beantkapoor16
▴ 10
0
votes
1
reply
141
views
DRAGEN gVCF files and joint calling GATK-GenomicsDB
DRAGEN
GenomicsDB
updated 6 days ago by
DBScan
▴ 310 • written 6 days ago by
brunomiwa
• 0
0
votes
0
replies
94
views
Last step of metagenome analysis before visualization
metagenome
python
analyis
6 days ago by
Ayda Ecem
• 0
0
votes
3
replies
183
views
Generating a Bed file from a Fasta file
bed
NullSeq
updated 6 days ago by
Ram
44k • written 6 days ago by
pirku
• 0
0
votes
3
replies
1.8k
views
Running STRUCTURE from command line
STRUCTURE
updated 6 days ago by
Ram
44k • written 3.0 years ago by
giulia.trauzzi
▴ 10
1
vote
3
replies
572
views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics
bootstrap
updated 6 days ago by
Klaus S
▴ 160 • written 6 weeks ago by
Zeng Hao
▴ 40
0
votes
0
replies
93
views
Calculated LAI is too large
annotation
LAI
assembly
TE
genome
6 days ago by
Yao
▴ 30
1
vote
1
reply
742
views
Herald:
The Biostar Herald for Monday, November 01, 2021
herald
written 2.6 years ago by
Biostar
2.8k
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
0
votes
0
replies
95
views
How to recover the entire sequence from all_contig_annotations.csv?
VDJ
single-cell
TCR-seq
cellranger
10x
6 days ago by
dawnyipingzou
• 0
0
votes
4
replies
251
views
Where to find old version of GATK best practice
gatk
6 days ago by
Zhenyu Zhang
★ 1.2k
0
votes
1
reply
125
views
Nextflow docker: Error response from daemon
sarek
gatk4
docker
nextflow
updated 6 days ago by
Pierre Lindenbaum
162k • written 6 days ago by
Peter Chung
▴ 200
0
votes
0
replies
98
views
News:
Online course- Advanced Python for Life Sciences
Python-Programming
Data-Visualisation
Machine-Learning
updated 6 days ago by
Ram
44k • written 6 days ago by
carlopecoraro2
★ 2.5k
178 results • Page
3 of 4
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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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by
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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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by
Nat.Nataren
▴ 10
I would be contacting the company as a start, and getting access to your raw data.
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82k
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
by
Jeremy Leipzig
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…
Comment: Cut&Run and heatmap
by
sogand
• 0
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
by
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▴ 100
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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by
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Could you find a solution to your problem?
Comment: txt file to bigwig
by
sogand
• 0
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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by
MolGeek
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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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14k
1) you have to say what question you are actually asking. There are few different designs that would address different questions. 2) work…
Comment: identify the coordinate for coding and non_coding region.
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Ghada
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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…
Comment: identify the coordinate for coding and non_coding region.
by
GenoMax
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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