BAM files for Genome Browser

[rohitngs]

Hello people,

I am trying to work on a Genome browser. At present I have generated only contigs for genome assembly (de-novo).
Can I generate BAM/SAM files for this denovo seembly contigs?

Is there a way for generating BAM/SAM files from normal fasta sequences of a reference genome without using alignment, by using just the FASTA files.
Or is it that these files can only be generated after aligning our genome with a reference.

I am trying to do all this for a Browser, it can be based on denovo assembly or just a reference genome.

Regards,
Rohit

[AnotherHTS]

Hi rohitngs,

BAM/SAM is an aligned format, containing information about your reads and how they map against a given reference.

If you don't have alignment information it is still possible to convert your unmapped reads into BAM/SAM format (leaving the alignment fields empty). But I think you will then struggle to do anything useful with the BAM/SAM file, as the genome browser will not be able to display the reads if it does not have any information about where to place them.