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aechchiki's user avatar
aechchiki
  • Member for 6 years, 11 months
  • Last seen this week
17 votes
7 answers
6k views

How to convert BED to GFF3

13 votes
2 answers
3k views

How to convert fastq to fast5

9 votes
3 answers
4k views

How to convert GFF3 to GTF2

9 votes
0 answers
145 views

Run cuffcompare in strand-agnostic mode

9 votes
2 answers
320 views

calling diploid SNVs from long reads

8 votes
2 answers
2k views

estimate genome size: kmer-based approach from PacBio reads

8 votes
4 answers
105 views

Introduce errors in reference transcripts according to external dataset error model

8 votes
1 answer
291 views

Convert local alignments to spliced alignments in SAM file

7 votes
1 answer
2k views

STAR-long parameters for aligning RNA ONT reads to genome

7 votes
1 answer
1k views

Coverage calculation: long reads (RNA-seq)

7 votes
3 answers
2k views

visualisation of genome alignment

6 votes
1 answer
333 views

Salmon output: transcripts quantified with zero reads support

6 votes
1 answer
368 views

Run gffread in multi-thread mode

6 votes
1 answer
163 views

Verify a predicted protein in one genome in a different genome of the same species

6 votes
1 answer
385 views

PASA pipeline: compare experimental transcripts to the reference annotation

6 votes
3 answers
510 views

tools to reconcile experimental transcripts with reference annotation

5 votes
1 answer
193 views

Documentation for Transfrag class codes (cuffcompare)

5 votes
1 answer
173 views

Find paralogs in a draft genome

5 votes
2 answers
843 views

full visualisation of draft genomes alignment

4 votes
2 answers
289 views

Exon-exon junctions: compare experimental transcripts to reference annotation

4 votes
1 answer
1k views

get gene lines from gtf file

3 votes
1 answer
902 views

gffread: GFaSeqGet errors on coordinate overhang

3 votes
3 answers
266 views

Correspondence of SARS-CoV-2 annotations (Nextstrain clades - Pango lineages)

2 votes
3 answers
1k views

Get start and end coordinates per chromosome

1 vote
1 answer
112 views

swap genotypes for specific fields of a vcf file

0 votes
2 answers
217 views

merge rows (to columns) in R dataframe based on IDs