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1,000 results • Page
4 of 20
Sort: replies
Rank
Views
Votes
Replies
87
votes
37
replies
50k
views
20 follow
Venn/Euler Diagram Of Four Or More Sets
r
updated 21 months ago by
Ram
41k • written 10.4 years ago by
Hunter
▴ 110
43
votes
37
replies
2.2k
views
7 follow
Forum:
Checking the quality and reliability in bioinformatics
reproducibility
updated 6 months ago by
Ram
41k • written 6.2 years ago by
fi1d18
★ 4.2k
18
votes
37
replies
13k
views
11 follow
Is it possible to download the full EpiCov database from GISAID?
GISAID
genome
Database
EpiCoV
updated 2.6 years ago by
jena
▴ 270 • written 3.7 years ago by
dgarcia54
▴ 30
17
votes
37
replies
4.3k
views
No alias or index file found for protein database
next-gen
software error
sequence
updated 4.5 years ago by
Biostar
20 • written 4.7 years ago by
williamsbrian5064
▴ 500
130
votes
37
replies
13k
views
27 follow
What Are The Obsolete Research Topics In Bioinformatics?
updated 12.3 years ago by
Pals
★ 1.3k • written 12.3 years ago by
Sirus
▴ 820
34
votes
37
replies
16k
views
6 follow
How to cluster genes in heatmap
RNA-Seq
R
gene
updated 6.0 years ago by
Ram
41k • written 6.0 years ago by
Mehmet
▴ 820
5
votes
37
replies
3.1k
views
search text in one file and then replace with text from another file
search
replace
multiple files
6.2 years ago by
mforthman
▴ 40
16
votes
37
replies
16k
views
7 follow
extracting the soft clipped seq only from a sam file
sam
bam
soft clip
updated 7.4 years ago by
Biostar
20 • written 8.9 years ago by
Varun Gupta
★ 1.3k
110
votes
37
replies
7.8k
views
13 follow
Bioinformatics Career Survey 2011/2012
career
updated 9 months ago by
Ram
41k • written 12.2 years ago by
Pierre Lindenbaum
158k
244
votes
36
replies
9.0k
views
32 follow
Forum:
Good Habit for Bioinformatics Analyst or Scientist
Analyst
Scientist
updated 8 months ago by
Ram
41k • written 7.6 years ago by
Shicheng Guo
★ 9.3k
49
votes
36
replies
8.2k
views
11 follow
Forum:
New features and bug fixes for Biostar to work on during Google Summer of Code
meta
biostars
gsoc
updated 9 months ago by
Ram
41k • written 9.6 years ago by
Paolo
▴ 110
36
votes
36
replies
37k
views
17 follow
Fetching Genbank Entries For List Of Accession Numbers.
ncbi
entrez
updated 2.6 years ago by
d.s.account
• 0 • written 10.7 years ago by
Sanjar
▴ 140
16
votes
36
replies
6.5k
views
Automating Trimmomatic for total Noobs
RNA-Seq
updated 4.8 years ago by
Istvan Albert
99k • written 4.8 years ago by
new15b
▴ 30
18
votes
36
replies
4.0k
views
6 follow
GPL6883_HumanRef-8_V3_0_R0_11282963_A (illumina expression beadchip)
R
updated 13 months ago by
seta
★ 1.8k • written 3.1 years ago by
daniela.paola.s.p
▴ 70
10
votes
36
replies
5.4k
views
Design in DESeq: Can you combine explicit and implicit batch effect correction in (SVA+Metadata Variables)?
DESeq2
R
batch effects
SVA
updated 5.3 years ago by
Teresa
▴ 20 • written 5.3 years ago by
Kristin Muench
▴ 620
40
votes
36
replies
13k
views
9 follow
Obtaining uniquely mapped reads from BWA mem alignment (filtering by q score does not seem to do the trick in my case)
next-gen
alignment
bwa
updated 6.5 years ago by
John
13k • written 6.5 years ago by
betsy.s.collins
▴ 130
9
votes
36
replies
11k
views
18 follow
Convert Gene IDs of Tomato Sol Database
tomato
gene
updated 12 months ago by
Ram
41k • written 8.4 years ago by
kevluv93
▴ 170
84
votes
36
replies
18k
views
13 follow
Forum:
Benchmark - Comparison of Different NGS Mappers
mRNA-Seq
benchmark
NGS-mapper
updated 21 months ago by
Ram
41k • written 9.0 years ago by
David Langenberger
10k
3
votes
36
replies
4.7k
views
inquiry related to snpsift
rsid
snp
vcf
updated 2.4 years ago by
Kevin Blighe
86k • written 2.4 years ago by
rheab1230
▴ 140
38
votes
36
replies
5.9k
views
11 follow
Largest Bioinformatics Software Project?
software
comparison
updated 12.7 years ago by
lh3
33k • written 12.7 years ago by
Tomer Altman
▴ 40
88
votes
36
replies
39k
views
15 follow
1000 Genomes Ld Calculation
genome
linkage
gwas
updated 9.8 years ago by
Leandro Lima
▴ 970 • written 13.2 years ago by
Ryan D
★ 3.4k
25
votes
36
replies
12k
views
13 follow
ATAC-seq DE analysis
ATAC-seq
Differential expression
updated 2.6 years ago by
jared.0.pollard
• 0 • written 5.5 years ago by
collmerr
▴ 40
251
votes
36
replies
32k
views
27 follow
Forum:
How Do You Manage Your Files & Directories For Your Projects ?
project-management
file-management
updated 8 months ago by
Ram
41k • written 13.6 years ago by
Pierre Lindenbaum
158k
11
votes
36
replies
33k
views
6 follow
python script error: ImportError: No module named pysam
pysam
pythonscript
.py
overlapsignature
updated 5.6 years ago by
Carlos Borroto
★ 2.1k • written 5.6 years ago by
jaqx008
▴ 110
59
votes
36
replies
37k
views
27 follow
Pca From Vcf Files
pca
genome
vcf
updated 16 months ago by
hewm2008
▴ 40 • written 11.6 years ago by
Rubal7
▴ 830
34
votes
35
replies
15k
views
8 follow
Sample names for TCGA data from GDC-legacy archive
RNA-Seq
tcga
gdc
updated 4.8 years ago by
david.peeney
▴ 30 • written 5.7 years ago by
Vasu
▴ 740
149
votes
35
replies
61k
views
33 follow
Tutorial:
Tools For Metagenomic Data Analysis
metagenomics
next-gen
updated 9 months ago by
Ram
41k • written 11.0 years ago by
vijay
★ 1.6k
79
votes
35
replies
9.0k
views
17 follow
Forum:
Do bioinformaticians often break molecular biologists' hearts by being the first author?
authorship
career
updated 6 months ago by
jli.ww
• 0 • written 8.1 years ago by
sentausa
▴ 650
76
votes
35
replies
29k
views
13 follow
Illumina Instrument Type from fastq?
fastq
updated 7 months ago by
Nathan
▴ 20 • written 7.5 years ago by
andrew.j.skelton73
6.5k
2
votes
35
replies
10k
views
BWA-MEM using long PacBio reads
PacBio
alignement
bwa-mem
sam
updated 6.9 years ago by
Brian Bushnell
20k • written 6.9 years ago by
Rox
★ 1.4k
17
votes
35
replies
3.2k
views
reading blast result file
blast
7.0 years ago by
nasromer2191989
▴ 20
65
votes
35
replies
20k
views
17 follow
Which Dna Compression Algorithms Are Actually Used?
dna
updated 15 months ago by
Pierre Lindenbaum
158k • written 12.5 years ago by
Anthony Labarre
▴ 270
22
votes
35
replies
5.4k
views
Removing identifier with "unavailable sequence" from FASTA file
sequence
genome
blast
RNA-Seq
updated 20 months ago by
Ram
41k • written 8.9 years ago by
seta
★ 1.8k
26
votes
35
replies
31k
views
16 follow
Calculate The Frequency Of Nucleotides At Each Position In An Mpileup File
mpileup
updated 10 months ago by
Jan Röslein
▴ 10 • written 9.7 years ago by
komal.rathi
★ 4.1k
56
votes
35
replies
13k
views
9 follow
How to get sample names and genotype for SNP in multi-sample VCF file
SNP
genotype
GATK
updated 9 weeks ago by
Kevin Blighe
86k • written 5.8 years ago by
hellbio
▴ 520
40
votes
35
replies
12k
views
10 follow
find positions of a short sequence in a genome
sequence
search
updated 3 months ago by
Mark
★ 1.5k • written 7.3 years ago by
igor
13k
15
votes
35
replies
3.2k
views
To obtain upstream DNA sequence by giving location
SNP
R
genome
updated 5.0 years ago by
ATpoint
78k • written 5.0 years ago by
bioinfo456
▴ 150
14
votes
35
replies
9.2k
views
8 follow
Converting large (compressed and unsorted) BAM files to fastq
BAM
fatsq
alignment
bedtools
picard
updated 2.4 years ago by
GenoMax
136k • written 7.0 years ago by
alesssia
▴ 580
116
votes
35
replies
7.8k
views
18 follow
Forum:
Is Biostar Killing The Bioinformatics Core?
core
biostars
updated 9 months ago by
Ram
41k • written 10.7 years ago by
Jeremy Leipzig
22k
5
votes
35
replies
3.0k
views
Reduce set of chromosomes in Pangenome graph
pangenome
vg
updated 5 months ago by
Jordan M Eizenga
▴ 410 • written 5 months ago by
anivlete
• 0
4
votes
35
replies
9.1k
views
Is They Any Software Or Technique To Find The Number Of Reads Mapped To Each Contig After Aligment
mapping
RNA-seq
updated 9 months ago by
Ram
41k • written 9.9 years ago by
bambus0725
▴ 50
121
votes
35
replies
41k
views
20 follow
Forum:
Snakemake vs. Nextflow: strengths and weaknesses
snakemake
nextflow
updated 7 months ago by
Ram
41k • written 6.5 years ago by
ropolocan
▴ 810
97
votes
35
replies
25k
views
16 follow
Disease Associated Snps
snp
gwas
database
updated 9.9 years ago by
vaibhav
• 0 • written 13.5 years ago by
pixie@bioinfo
★ 1.5k
45
votes
35
replies
5.6k
views
12 follow
Forum:
looking for a bioinformatics project to do during military rotation
military
updated 17 months ago by
Ram
41k • written 6.3 years ago by
hasani.iut6
▴ 60
83
votes
34
replies
17k
views
22 follow
Tutorial:
Enrichment Analysis, Clustering and Scoring with pathfindR
enrichment
R
pathway
active-subnetwork
updated 6 months ago by
adelheidkratzer
• 0 • written 5.5 years ago by
egeulgen
★ 1.3k
32
votes
34
replies
15k
views
10 follow
How To Randomly Sample A Subset Of Lines From A Bed File
bed
chip-seq
updated 2.1 years ago by
Ram
41k • written 10.1 years ago by
bede.portz
▴ 540
19
votes
34
replies
5.1k
views
6 follow
How can I convert the blast results into a matrix?
perl
linux
python
blast
updated 21 months ago by
Ram
41k • written 9.0 years ago by
kandoigaurav
▴ 150
80
votes
34
replies
4.8k
views
11 follow
Forum:
Authorship issues- how to resolve?
authorship
updated 11 months ago by
Ram
41k • written 8.5 years ago by
datanerd
▴ 520
41
votes
34
replies
15k
views
10 follow
Best tool for variant calling
SNP
genome
alignment
next-gen
updated 5.1 years ago by
claire
• 0 • written 5.6 years ago by
williamsbrian5064
▴ 500
101
votes
34
replies
108k
views
23 follow
How To Split A Bam File By Chromosome
bam
split
chromosome
updated 9 weeks ago by
Jorge Amigo
14k • written 11.5 years ago by
GPR
▴ 390
1,000 results • Page
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Comment: GATK GetPileupSummaries Java heap space
Answer: How to subtract variants from one VCF file to another?
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Recent Replies
Comment: which statistical test and which package for comapre datasets?
by
Jeremy
▴ 860
I think you will need at least three replicates to be able to do statistics.
Comment: GetPileupSummaries intervals-list with Targeted Sequencing?
by
Pierre Lindenbaum
158k
> Asking for bed file is not a suitable option in the current scenario. ???????
Comment: GetPileupSummaries intervals-list with Targeted Sequencing?
by
Manuel Sokolov Ravasqueira
▴ 100
they only provided me the sorted.bam files aligned with hg19. I converted bam into fastq and started variant calling from there. Asking for…
Comment: GetPileupSummaries intervals-list with Targeted Sequencing?
by
Pierre Lindenbaum
158k
> kit is proprietary I can't imagine you get a targeted sequencing without having a BED file....
Comment: GetPileupSummaries intervals-list with Targeted Sequencing?
by
Manuel Sokolov Ravasqueira
▴ 100
thanks for the suggestion. how can i obtain the bedfile of my targets (kit is proprietary - can I obtain bed from fasta? if yes how?)
Comment: Is interleaved Fastq files the same as interlaced fastq
by
rpolicastro
12k
This may indicate that your R1 and R2 reads were processed in a way that didn't maintain the 1:1 order of matching forward and reverse read…
Comment: Is interleaved Fastq files the same as interlaced fastq
by
RCMC
• 0
Sorry I accidentally hit enter BWA-MEM2 has occurring some error and states that paired reads have different names so I am trying to com…
Comment: GetPileupSummaries intervals-list with Targeted Sequencing?
by
Pierre Lindenbaum
158k
how about using the bed file of your targets....
Answer: LCA from BLAST output
by
Dunois
★ 2.4k
You should probably be using `MMseqs2`'s `taxonomy` module for this: [https://github.com/soedinglab/MMseqs2#taxonomy][1] . [1]: https:/…
Comment: autodock vina on mac
by
iamsmor
• 0
thank you but ı am already follow this tutorial steps but at mgltools steps at the page but ı dont undertsand there isnot no enough explana…
Comment: How to create interval list from reference fasta or dict file?
by
Manuel Sokolov Ravasqueira
▴ 100
Hello @MatthewP , were you able to that for a fasta file for example? If you have a fasta file containing a targeted region, how to you ge…
Comment: WGCNA Dendrogram Branch missing from modules
by
andres.firrincieli
3.5k
I am not familiar with hdWGCNA but perhaps some modules are excluded because their genes are not expressed in a certain proportion of cells.
Comment: LCA from BLAST output
by
Michael
53k
If you know the lineage information is complete you could compare which columns are identical, however, there may be unranked levels in bet…
Comment: Is GeSeq currently unavailable?
by
GenoMax
136k
Email the developers listed on contact page: https://chlorobox.mpimp-golm.mpg.de/contact.html
Comment: Alternative to Gentrome?
by
GenoMax
136k
Curious as to what is `gentrome`? Genome decoy + transcriptome?
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