Changes

= Download =

= Download =

Source code can be found [http://www.sph.umich.edu/csg/cfuchsb/ here] .

Source code can be found [http://www.sph.umich.edu/csg/cfuchsb/ here] .

= Parameter=  

= Parameter=  

|-  

|-  

|style=white-space:nowrap|<code>--in <filename></code>

|style=white-space:nowrap|<code>--in <filename></code>

| Input VCF file. The latest 1000 Genomes files can be found [ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/release/20110521/phase1_integrated_calls.20101123.ALL.panel here].

| Input VCF filename. The latest 1000 Genomes files can be found [ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/release/20110521/phase1_integrated_calls.20101123.ALL.panel here].

|-  

|-  

| <code>--out <filename></code>

| <code>--out <filename></code>

|-

|-

| <code>--sampleSubset <filename></code>

| <code>--sampleSubset <filename></code>

| file with samples IDs to keep (one sample ID per line).

| filename of file with samples IDs to keep (one sample ID per line).

|-

|-

| <code>--minAC</code>

| <code>--minAC</code>

|-

|-

| <code>--filterList <filename></code>

| <code>--filterList <filename></code>

| filename of file containing regions to include. <br>format: start end <br> start & end positions should be 1-based inclusive positions.

| filename of file containing regions to include. <br>format: start end <br> start & end positions should be 1-based inclusive positions <br> for SNPs start=end position

|-

|-

| <code>--params</code>

| <code>--params</code>