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7
votes
10
replies
1.5k
views
Build NCBI blast database with a specific genus or species
ncbi blast
updated 9 months ago by 142k • written 9 months ago by ▴ 180
0
votes
3
replies
801
views
Automate fasta sequence ordering based on reference
reference denovo assembly contigs
updated 21 months ago by 6.4k • written 21 months ago by ▴ 180
0
votes
3
replies
959
views
Can snippy detect large insertions?
VCF snippy variants
updated 21 months ago by 3.6k • written 21 months ago by ▴ 180
0
votes
1
reply
900
views
Using bcftools isec to filter for unique variants
vcf variants bcftools vcftools
updated 10 months ago by 43k • written 21 months ago by ▴ 180
0
votes
5
replies
2.6k
views
bedtools multicov displays only the last BED feature
bedtools multicov
updated 5.0 years ago by • 0 • written 6.8 years ago by ▴ 180
6
votes
8
replies
2.9k
views
Generating random DNA sequence and paired-end alignment
R Python Simulation
updated 5.8 years ago by ▴ 70 • written 7.7 years ago by ▴ 180
2
votes
3
replies
2.1k
views
Align reads on multi-fasta (contigs) file?
bwa
5.8 years ago by ThePresident ▴ 180
4
votes
4
replies
1.6k
views
Extracting multiple features using NCBI's e-utilities?
e-utilities perl
6.0 years ago by ThePresident ▴ 180
10
votes
9
replies
3.5k
views
Copy number variation using HTSeq/DESeq2
copy number DESeq HTSeq
updated 6.4 years ago by 47k • written 6.4 years ago by ▴ 180
3
votes
6
replies
3.4k
views
DAVID not accepting locus_tag identifiers. Alternatives?
DAVID locus_tag
6.5 years ago by ThePresident ▴ 180
3
votes
5
replies
2.4k
views
How to perform functional gene clustering?
DAVID clustering
updated 6.6 years ago by 87k • written 6.6 years ago by ▴ 180
4
votes
10
replies
5.5k
views
How to extract only 5-prime hard/soft clipped reads?
SAM clipping
6.7 years ago by ThePresident ▴ 180
6
votes
12
replies
2.5k
views
Problems getting read number per gene after sequencing
HTSeq bedtools multicov
updated 6.8 years ago by 12k • written 6.8 years ago by ▴ 180
5
votes
9
replies
3.0k
views
Bwa producing no alignment
bwa
updated 6.8 years ago by 20 • written 6.9 years ago by ▴ 180
0
votes
0
replies
1.3k
views
Retrieving SRA datasets for completed bacterial genomes
SRA NCBI
6.9 years ago by ThePresident ▴ 180
0
votes
2
replies
1.5k
views
Parsing reads from SAM file by Fwd-Fwd orientation
SAM FLAG R
updated 7.0 years ago by 161k • written 7.0 years ago by ▴ 180
0
votes
2
replies
2.5k
views
Quantifying relative ratios of variants by qPCR
qPCR deltadeltaCt
written 7.5 years ago by ▴ 180
3
votes
2
replies
1.9k
views
Calling large structural variants from bacterial PacBio data
SV Pacbio
updated 7.5 years ago by 9.7k • written 7.5 years ago by ▴ 180
2
votes
3
replies
1.6k
views
Detecting genomic rearrangements from resequencing
Illumina
7.6 years ago by ThePresident ▴ 180
8
votes
5
replies
3.6k
views
Draw circular genome with selected features
circular plots R
updated 7.6 years ago by 7.5k • written 7.6 years ago by ▴ 180
1
vote
6
replies
3.3k
views
Extract sequence of BLAST hits
BLAST XML
updated 12 months ago by 43k • written 7.6 years ago by ▴ 180
5
votes
6
replies
3.5k
views
Extract DNA sequence based on a single coordinate
extract seq R python
7.7 years ago by ThePresident ▴ 180
3
votes
1
reply
3.7k
views
Extract soft-clipped reads from BWA -generated SAM file
soft-clipping
updated 7.7 years ago by 20 • written 7.7 years ago by ▴ 180
1
vote
2
replies
3.6k
views
Alignment with BWA: how to discard multi mappers?
bwa paired-end
updated 7.7 years ago by 13k • written 7.7 years ago by ▴ 180
3
votes
9
replies
4.5k
views
bowtie --fr/--rf/--ff reporting
bowtie
updated 7.8 years ago by 104k • written 7.8 years ago by ▴ 180
0
votes
6
replies
1.8k
views
Looking for structural variants with paired-end sequencing data
Illumina paired-end
updated 7.8 years ago by ▴ 120 • written 7.8 years ago by ▴ 180
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